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    phoB DNA-binding transcriptional dual regulator PhoB [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 945046, updated on 4-Apr-2024

    Summary

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    Gene symbol
    phoB
    Gene description
    DNA-binding transcriptional dual regulator PhoB
    Primary source
    ASAP:ABE-0001389
    Locus tag
    b0399
    See related
    ECOCYC:EG10728
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Escherichia coli str. K-12 substr. MG1655 (strain: K-12, substrain: MG1655)
    Lineage
    Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia
    Also known as
    ECK0393; phoRc; phoT
    Summary
    The PhoB protein belongs to the two-component family. [More information is available at EcoCyc: EG10728].
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    Genomic context

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    Sequence:
    NC_000913.3 (417142..417831)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene putative transport protein AraJ Neighboring gene ATP-dependent structure-specific DNA nuclease - SbcC subunit Neighboring gene ATP-dependent structure-specific DNA nuclease - SbcD subunit Neighboring gene sensor histidine kinase PhoR Neighboring gene branched chain amino acid transporter BrnQ

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_000913.3

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. PhoB activation in non-limiting phosphate condition by the maintenance of high polyphosphate levels in the stationary phase inhibits biofilm formation in Escherichia coli. Grillo-Puertas M, et al. Microbiology (Reading), 2016 Jun. PMID 27023099
    2. Temporal hierarchy of gene expression mediated by transcription factor binding affinity and activation dynamics. Gao R, et al. mBio, 2015 May 26. PMID 26015501, Free PMC Article
    3. Cooperative binding of PhoB(DBD) to its cognate DNA sequence-a combined application of single-molecule and ensemble methods. Ritzefeld M, et al. Biochemistry, 2013 Nov 19. PMID 24199636
    4. A link between dimerization and autophosphorylation of the response regulator PhoB. Creager-Allen RL, et al. J Biol Chem, 2013 Jul 26. PMID 23760278, Free PMC Article
    5. Probing the roles of the two different dimers mediated by the receiver domain of the response regulator PhoB. Mack TR, et al. J Mol Biol, 2009 Jun 5. PMID 19371748, Free PMC Article

    See all (73) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The results point to a model showing that PhoB is a component in the signal cascade regulating biofilm formation triggered by fluctuations of Polyphosphate levels in E. coli cells during stationary phase.
      Title: PhoB activation in non-limiting phosphate condition by the maintenance of high polyphosphate levels in the stationary phase inhibits biofilm formation in Escherichia coli.
    2. The expression timing of the core set of PhoB-regulated genes correlates well with the binding affinity of phosphorylated PhoB~P to individual promoters.
      Title: Temporal hierarchy of gene expression mediated by transcription factor binding affinity and activation dynamics.
    3. a combination of single-molecule and ensemble methods was used to investigate the binding mechanism and the impact of dimerization on the protein-DNA complex stability of PhoB(DBD)
      Title: Cooperative binding of PhoB(DBD) to its cognate DNA sequence-a combined application of single-molecule and ensemble methods.
    4. Data indicate that dimerization constants for the PhoB heterodimer and homodimer (two phosphorylated monomers) were similar, but the rate constant for heterodimer phosphorylation was ~10-fold higher than for the monomer.
      Title: A link between dimerization and autophosphorylation of the response regulator PhoB.
    5. sigma(4) domain of RpoD achieves promoter recognition through the N-terminal portion of its DNA recognition helix. Unexpectedly, the same recognition helix contacts the transactivation loop and helices alpha2 and alpha3 of PhoB.
      Title: The structure of a transcription activation subcomplex reveals how σ(70) is recruited to PhoB promoters.
    6. phosphorylation promotes dimerization via the alpha 4-beta 5-alpha 5 face, which enhances DNA binding and thus the ability of PhoB to regulate transcription.
      Title: Probing the roles of the two different dimers mediated by the receiver domain of the response regulator PhoB.
    7. CreC showed an interaction with PhoB, before an interaction between PhoB and PhoR, suggesting that this acts as a constant sensor for the early response to phosphate starvation.
      Title: Transcript and protein level analyses of the interactions among PhoB, PhoR, PhoU and CreC in response to phosphate starvation in Escherichia coli.
    8. Crystallography and solution NMR data for the receiver domain of PhoB which show distinct 2-fold symmetric dimers in the inactive and active states.
      Title: Mechanism of activation for transcription factor PhoB suggested by different modes of dimerization in the inactive and active states.
    9. PhoB has a role as a global regulator in Escherichia coli gene expression.
      Title: Novel gene members in the Pho regulon of Escherichia coli.
    10. analysis of cofactor-induced pre-active conformation in PhoB
      Title: The cofactor-induced pre-active conformation in PhoB.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Gene Ontology Provided by EcoCyc

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables bacterial-type RNA polymerase holo enzyme binding IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables phosphorelay response regulator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables phosphorelay response regulator activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transcription cis-regulatory region binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in phosphate ion transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in phosphorelay signal transduction system IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within regulation of DNA-templated transcription initiation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of protein-DNA complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    DNA-binding transcriptional dual regulator PhoB

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference assembly

    Genomic

    1. NC_000913.3 Reference assembly

      Range
      417142..417831
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_414933.1 DNA-binding transcriptional dual regulator PhoB [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_414933.1

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A376K1T1
      Conserved Domains (1) summary
      PRK10161
      Location:1 → 229
      PRK10161; phosphate response regulator transcription factor PhoB
    Nucleotide Protein
    Heading Accession and Version

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