Collection of Manually Curated Inferences of Regulons in Prokaryotic Genomes
-- version 3.2 --

Regulons of Bacillus pumilus SAFR-032

Allows to visualize regulome content in the context of metabolic pathways
Type Regulator Effector Pathway Operons Sites
TF AcoR Acetoin Acetoin utilization 1 1
TF AlsR Acetate Acetoin production 2 2
TF AnsR Asparagine Asparagine degradation 2 2
TF AraR Arabinose Arabinose utilization 3 2
TF ArgR Arginine Arginine biosynthesis; Arginine degradation 5 11
TF BH0651 Multidrug resistance; Multidrug efflux 1 1
TF BceR BceS, sensor histidine kinase (bacitracin) Bacitracin resistance 1 1
TF BglR Beta-glucoside-6-phosphate Beta-glucosides utilization 2 2
TF BglZ Beta-glucoside Beta-glucosides utilization 1 1
TF BirA Biotin Biotin biosynthesis 3 3
TF BkdR Branched-chain amino acid degradation 2 4
TF BltR Multidrug resistance 4 1
TF Btr Bacillibactin; Fe-Bacillibactin Iron homeostasis 1 1
TF CcpA HPr, phosphocarrier protein Carbon catabolism 92 70
TF CcpC Citrate Citrate metabolism 3 2
TF CcpN Gluconeogenesis 2 3
TF CggR Fructose-1,6-diphosphate Glycolysis 1 1
TF CitT Citrate Citrate utilization 1 1
TF CodY Guanosine triphosphate; Branched-chain amino acids Amino acid metabolism 98 56
TF ComA ComP, sensor histidine kinase (ComX) Competence 3 2
TF CsoR Copper ion, (Cu+) Copper resistance 3 2
TF CssR CssS, sensor histidine kinase Protein secretion stress response 3 5
TF CtsR Heat shock Heat shock response 5 4
TF CymR O-acetyl-L-serine; CysK, cysteine synthetase Cysteine metabolism 8 5
TF CysL Sulfate; Sulfite; Thiosulfate Sulfite reduction 4 3
TF CzrA Zinc ion, (Zn2+); Silver ion, (Ag+); Nickel ion, (Ni2+); Copper ion, (Cu2+); Cobalt ion, (Co2+); Cadmium, ion (Cd2+) Zinc resistance; Nickel resistance; Copper resistance; Cobalt resistance; Cadmium resistance 2 1
TF DctR C4-dicarboxylate transport 1 1
TF DeoR Deoxyribose-5-phosphate Deoxynucleoside utilization 1 2
TF DesR Cold shock response 1 1
TF ExuR Glucuronate; Galacturonate Glucuronate utilization; Galacturonate utilization 1 1
TF FadR Palmitoyl-CoA; Oleoyl-CoA Fatty acid degradation 5 5
TF FapR Malonyl-CoA Fatty acid biosynthesis 7 5
TF FatR Oleate; Gamma-linolenic acid; Linoleate; Phytanate Toxic fatty acid stress response 1 1
TF Fnr Oxygen Anaerobic metabolism 1 2
TF FruR Fructose-6-phosphate Fructose utilization 1 2
TF Fur Iron ion, (Fe2+) Iron homeostasis 21 25
TF GabR Pyridoxal-5-phosphate; Gamma-aminobutyric acid Gamma-aminobutyrate utilization 1 1
TF GanR Beta-galactosides Galactan utilization 2 2
TF GbsR (YuaC) Choline Glycine betaine synthesis 1 1
TF GlnL GlnK, sensor histidine kinase (glutamine) Aspartate utilization; Glutamine utilization 2 3
TF GlnR Feedback-inhibited GlnA, glutamine synthetase Nitrogen assimilation 3 5
TF GltC Glutamate; 2-oxoglutarate; RocG, glutamate dehydrogenase Glutamate metabolism 2 4
TF GlvR2 Maltose-6-phosphate Maltose utilization 2 2
TF GmuR Glucomannan utilization 2 1
TF HisR Histidine Histidine biosynthesis 2 2
TF HrcA Heat shock Heat shock response 3 2
TF HxlR Formaldehyde Ribulose monophosphate pathway 1 1
TF KdgR 2-keto-3-deoxygluconate Galacturonate utilization; Glucuronate utilization 3 5
TF KipR Sporulation 2 1
TF LexA DNA damage SOS response 24 25
TF LiaR LiaS, sensor histidine kinase (bacitracin, nisin, ramoplanin, vancomycin) Cell wall-active antibiotics stress response 1 1
TF LicR HPr, phosphocarrier protein; LicB, lichenan-specific enzyme IIB PTS component Beta-glucosides utilization 3 1
TF LutR L-lactate Lactate utilization 2 1
TF LytT Penicillin resistance 1 2
TF MalR MalK, sensor histidine kinase (malate) Malate utilization 2 2
TF MhqR 2-Methylhydroquinone and catechol resistance 6 4
TF MntR Manganese ion, (Mn2+) Manganese homeostasis 2 2
TF MsmR Alpha-galactosides Alpha-galactosides utilization 1 1
TF MtlR MtlA, mannitol-specific enzyme IICB PTS component; HPr, phosphocarrier protein Mannitol utilization 2 2
TF MurR N-acetylmuramate-6-phosphate N-acetylmuramate utilization 1 1
TF NagR N-acetylglucosamine-6-phosphate N-acetylglucosamine utilization 2 2
TF NiaR Niacin NAD biosynthesis 3 1
TF NrdR Deoxyribonucleotides Deoxyribonucleotide biosynthesis 1 2
TF NsrR Nitric oxide Nitrosative stress response 3 5
TF NtdR 3,3'-neotrehalosadiamine Neotrehalosadiamine biosynthesis 2 3
TF OhrR tert-Butyl hydroperoxide; Diamide; Cumene hydroperoxide; Hydrogen peroxide Peroxide stress response 2 1
TF PadR p-Coumaric acid; Ferulic acid Phenolic acid stress response 2 2
TF PerR Hydrogen peroxide; Manganese ion, (Mn2+); Iron ion, (Fe2+) Oxidative stress response; Peroxide stress response 7 11
TF PurR 5-phosphoribosyl 1-pyrophosphate Purine metabolism 10 11
TF PutR Proline Proline utilization 1 1
TF QdoR Quercetin; Fisetin; Tamarixetin; Galangin Multidrug resistance 3 1
TF RbsR Ribose Ribose utilization 1 1
TF Rex NADH Energy metabolism 7 5
TF RmgR Rhamnogalacturonides utilization 2 2
TF RocR Ornithine; L-citrulline Arginine degradation; Ornithine degradation 3 2
TF SinR SinI, antirepressor protein Biofilm formation 3 3
TF TnrA NrgB, ammonium uptake protein; NrgA, ammonium uptake protein; Feedback-inhibited GlnA, glutamine synthetase Nitrogen assimilation 41 30
TF TreR Trehalose-6-phosphate Trehalose utilization 1 2
TF XylR Xylose Xylose utilization 4 3
TF YcxD Multidrug efflux 1 1
TF YfmP Metal efflux 1 1
TF YhgD 2 2
TF YisR Metabolite transport 1 1
TF YodB/CatR Diamide; Quinone Oxidative stress response 8 5
TF YrkD Multidrug resistance 2 3
TF YtcD 3 2
TF YtrA Ramoplanin Ramoplanin resistance 2 1
TF YvbF/YvaV Osmotic stress response 2 2
TF YwbI Cell wall metabolism 2 2
TF YwrC Metal homeostasis 1 1
TF Zur Zinc ion, (Zn2+) Zinc homeostasis 5 6
RNA Cobalamin Adenosylcobalamin Cobalamin biosynthesis 3 1
RNA FMN Flavin mononucleotide Riboflavin biosynthesis 4 2
RNA GEMM_RNA_motif Cyclic diguanylate Second messenger response 2 1
RNA Glycine Glycine Glycine metabolism 3 3
RNA L10_leader Ribosome biogenesis 1 1
RNA L13_leader Ribosome biogenesis 1 1
RNA L19_leader Ribosome biogenesis 1 1
RNA L21_leader Ribosome biogenesis 1 1
RNA Lysine Lysine Lysine biosynthesis 3 2
RNA PreQ1 Pre-queuosine1 Queuosine biosynthesis 2 1
RNA Purine Adenine; Guanine Purine metabolism 10 4
RNA PyrR PyrR Pyrimidine metabolism 3 3
RNA SAM S-adenosylmethionine Methionine biosynthesis 15 9
RNA T-box(Ala) Ala-tRNA Amino acid metabolism 1 1
RNA T-box(Cys) Cys-tRNA Amino acid metabolism 1 1
RNA T-box(Gly) Gly-tRNA Amino acid metabolism 1 1
RNA T-box(Ile) Ile-tRNA Amino acid metabolism 3 1
RNA T-box(Leu) Leu-tRNA Amino acid metabolism 5 4
RNA T-box(Lys) Lys-tRNA Amino acid metabolism 2 1
RNA T-box(Met) Met-tRNA Amino acid metabolism 2 1
RNA T-box(Phe) Phe-tRNA Amino acid metabolism 1 1
RNA T-box(Pro) Pro-tRNA Amino acid metabolism 5 3
RNA T-box(Ser) Ser-tRNA Amino acid metabolism 2 1
RNA T-box(Thr) Thr-tRNA Amino acid metabolism 4 2
RNA T-box(Trp) Trp-tRNA Amino acid metabolism 2 1
RNA T-box(Tyr) Tyr-tRNA Amino acid metabolism 3 1
RNA T-box(Val) Val-tRNA Amino acid metabolism 1 1
RNA TPP Thiamine pyrophosphate Thiamine biosynthesis 5 4
RNA glmS Glucosamine-6-phosphate Amino sugar metabolism 1 1
RNA ydaO-yuaA Cell wall metabolism; Osmotic stress response 2 2
RNA ykkC-yxkD Multidrug resistance 1 1
RNA ykoK Magnesium ion, (Mg2+) Magnesium homeostasis 1 1
RNA ylbH 1 1
RNA yybP-ykoY 4 2
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