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    hupB DNA-binding protein HU-beta [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 949095, updated on 3-Dec-2024

    Summary

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    Official Symbol
    hupB
    Official Full Name
    DNA-binding protein HU-beta
    Primary source
    ECOCYC:EG10467
    Locus tag
    b0440
    See related
    ASAP:ABE-0001527
    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
    dbhB; dpeA; ECK0434; hopD
    Summary
    HU concentration in the cell determines the mechanical effect; flexible bends responsible for compaction occur at concentrations <100nM, while increased concentrations result in the formation of a rigid nucleoprotein filament and no significant concentration. [More information is available at EcoGene: EG10467]. HU is a heterodimer formed by an - and a -subunit that are encoded by hupA and hupB genes, respectively. [More information is available at EcoCyc: EG10467].
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    Genomic context

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    Sequence:
    NC_000913.3 (461451..461723)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene ATP-dependent Clp protease ATP-binding subunit ClpX Neighboring gene Lon protease Neighboring gene periplasmic folding chaperone Neighboring gene helix-hairpin-helix 3 family protein

    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. Genetic characterization of the gene hupB encoding the HU-1 protein of Escherichia coli. Kano Y, et al. Gene, 1986. PMID 3536664
    2. Regulation of HU alpha and HU beta by CRP and FIS in Escherichia coli. Claret L, et al. J Mol Biol, 1996 Oct 25. PMID 8913296
    3. Maintenance of plasmids in HU and IHF mutants of Escherichia coli. Ogura T, et al. Mol Gen Genet, 1990 Jan. PMID 2183003
    4. Construction and characterization of mutations in hupB, the gene encoding HU-beta (HU-1) in Escherichia coli K-12. Storts DR, et al. J Bacteriol, 1988 Apr. PMID 3280548, Free PMC Article
    5. Molecular cloning and nucleotide sequence of the HU-1 gene of Escherichia coli. Kano Y, et al. Mol Gen Genet, 1985. PMID 3003540

    See all (94) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. HU-AB simulacrum: Fusion of HU-B and HU-A into HU-B-A, a functional analog of the Escherichia coli HU-AB heterodimer.
      Title: HU-AB simulacrum: Fusion of HU-B and HU-A into HU-B-A, a functional analog of the Escherichia coli HU-AB heterodimer.
    2. By performing ChIP-seq experiments of each subunit of HU in the absence of the other subunit, genome-wide maps of DNA binding of the proteins in their hetero- and homodimeric forms were defined.
      Title: Genomic analysis of DNA binding and gene regulation by homologous nucleoid-associated proteins IHF and HU in Escherichia coli K12.
    3. It is remarkable that the observed salt concentration dependency of the binding constants of the three DNA binding modes of the HUbeta subunit is similar, given the large differences in the binding site sizes between these modes.
      Title: Nonspecific DNA binding and bending by HUαβ: interfaces of the three binding modes characterized by salt-dependent thermodynamics.
    4. Under physiological conditions, the three possible dimeric forms of the E. coli HU protein (EcHUalpha, EcHUbeta, and EcHUalphabeta) are in thermal equilibrium between two dimeric conformations (N<--> I) varying in their secondary structure content.
      Title: An alternative flexible conformation of the E. coli HUβ₂ protein: structural, dynamics, and functional aspects.
    5. An HU dimer requires 24 nt of ssDNA for initial binding, and 12 nt of ssDNA for each additional dimer binding.
      Title: HU binds and folds single-stranded DNA.
    6. N-terminus verified by Edman degradation on complete protein
      Title: Comparing the predicted and observed properties of proteins encoded in the genome of Escherichia coli K-12.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by EcoCyc

    Function Evidence Code Pubs
    contributes_to DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables structural constituent of chromatin IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA repair NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in DNA replication initiation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in DNA replication initiation NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    acts_upstream_of_or_within DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within DNA-templated transcription IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in bacterial nucleoid packaging NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in chromosome condensation IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of DnaA-HU complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    part_of HU-DNA complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    DNA-binding protein HU-beta

    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
      461451..461723
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_414974.1 DNA-binding protein HU-beta [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_414974.1

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A6M9WYV4, A0A8S7RDC5
      Conserved Domains (1) summary
      PRK10664
      Location:1 → 90
      PRK10664; DNA-binding protein HU-beta
    Nucleotide Protein
    Heading Accession and Version

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