RegulonDB RegulonDB 11.1: Operon Form
   

mdtABCD-baeSR operon and associated TUs in Escherichia coli K-12 genome




Operon      
Name: mdtABCD-baeSR
This page displays every known transcription unit of this operon and their known regulation.


Transcription unit          
Name: mdtABCD-baeSR
Gene(s): mdtA, mdtB, mdtC, mdtD, baeS, baeR   Genome Browser M3D Gene expression COLOMBOS
Evidence: [EXP-IDA-TRANSCRIPT-LEN-DETERMINATION] Length of transcript experimentally determined
[EXP-IEP-COREGULATION] Inferred through co-regulation
Reference(s): [1] Nagakubo S., et al., 2002
Promoter
Name: mdtAp
+1: 2153979
Sigma Factor: Sigma38 Sigmulon
Distance from start of the gene: 37
Sequence: ccagacagtgtttcataattcctccatttttctcccttattggctggctacactagtatcAttccgcgaaacgtttcagga
                         -35                -10             +1                   
Evidence: [COMP-AINF]
[COMP-AINF-POSITIONAL-IDENTIFICATION]
Reference(s): [2] Gama-Castro S., et al., 2008
[3] Huerta AM., et al., 2003
TF binding sites (TFBSs)
[BaeR,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
proximal BaeR-phosphorylated activator mdtAp 2153942 2153961 -27.5 cataattcctCCATTTTTCTCCCTTATTGGctggctacac nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-AINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] W [1], [4], [5]
[CpxR,+] Phrase
Type Transcription factor Function Promoter Binding Sites Growth Conditions Evidence Confidence level (C: Confirmed, S: Strong, W: Weak) Reference(s)
LeftPos RightPos Central Rel-Pos Sequence
remote CpxR-phosphorylated activator mdtAp 2153843 2153859 -128.5 cagtctatcgCTAACGCGTAGATAAAAtagtttcctg nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [IC], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [IC] W [4]
proximal CpxR-phosphorylated activator mdtAp 2153906 2153920 -66.5 atgtgcccgtCATTCAGACGATTCCagacagtgtt nd [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [IC], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [IC] W [4]


Transcription unit       
Name: baeSR
Gene(s): baeS, baeR   Genome Browser M3D Gene expression COLOMBOS
Reference(s): [6] Nagasawa S., et al., 1993


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

 [COMP-AINF-POSITIONAL-IDENTIFICATION] Automated inference of promoter position

 [EXP-IEP-GENE-EXPRESSION-ANALYSIS] Gene expression analysis

 [COMP-AINF-SIMILAR-TO-CONSENSUS] Automated inference based on similarity to consensus sequences

 [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] Binding of purified proteins

 [IC] Inferred by curator


Reference(s)    

 [1] Nagakubo S., Nishino K., Hirata T., Yamaguchi A., 2002, The putative response regulator BaeR stimulates multidrug resistance of Escherichia coli via a novel multidrug exporter system, MdtABC., J Bacteriol 184(15):4161-7

 [2] Gama-Castro S., Jimenez-Jacinto V., Peralta-Gil M., Santos-Zavaleta A., Penaloza-Spinola MI., Contreras-Moreira B., Segura-Salazar J., Muniz-Rascado L., Martinez-Flores I., Salgado H., Bonavides-Martinez C., Abreu-Goodger C., Rodriguez-Penagos C., Miranda-Rios J., Morett E., Merino E., Huerta AM., Trevino-Quintanilla L., Collado-Vides J., 2008, RegulonDB (version 6.0): gene regulation model of Escherichia coli K-12 beyond transcription, active (experimental) annotated promoters and Textpresso navigation., Nucleic Acids Res 36(Database issue):D120-4

 [3] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78

 [4] Hirakawa H., Inazumi Y., Masaki T., Hirata T., Yamaguchi A., 2005, Indole induces the expression of multidrug exporter genes in Escherichia coli., Mol Microbiol 55(4):1113-26

 [5] Nishino K., Honda T., Yamaguchi A., 2005, Genome-wide analyses of Escherichia coli gene expression responsive to the BaeSR two-component regulatory system., J Bacteriol 187(5):1763-72

 [6] Nagasawa S., Ishige K., Mizuno T., 1993, Novel members of the two-component signal transduction genes in Escherichia coli., J Biochem 114(3):350-7

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