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

Gene ID: 949095, updated on 26-Mar-2025

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 (95) 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 DNA 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
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