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    dps DNA protection during starvation protein [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 945101, updated on 3-Dec-2024

    Summary

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    Official Symbol
    dps
    Official Full Name
    DNA protection during starvation protein
    Primary source
    ECOCYC:EG11415
    Locus tag
    b0812
    See related
    ASAP:ABE-0002776
    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
    ECK0801; pexB; vtm
    Summary
    dps is required for growth below 8C, which is enabled by transgenic Oleispira antarctica Cpn10/60. [More information is available at EcoGene: EG11415]. Dps is a highly abundant protein in stationary-phase Escherichia coli and is required for the normal starvation response and long-term stationary phase viability . [More information is available at EcoCyc: EG11415].
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    Genomic context

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    Sequence:
    NC_000913.3 (848408..848911, complement)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene L-glutamine ABC transporter ATP binding subunit Neighboring gene L-glutamine ABC transporter membrane subunit Neighboring gene L-glutamine ABC transporter periplasmic binding protein Neighboring gene L-threonine/L-homoserine exporter Neighboring gene protein YliM

    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. Analysis of protein synthesis rates after initiation of chromosome replication in Escherichia coli. Bechtloff D, et al. J Bacteriol, 1999 Oct. PMID 10515917, Free PMC Article
    2. Acid stress damage of DNA is prevented by Dps binding in Escherichia coli O157:H7. Jeong KC, et al. BMC Microbiol, 2008 Oct 15. PMID 18922164, Free PMC Article
    3. DNA condensation and self-aggregation of Escherichia coli Dps are coupled phenomena related to the properties of the N-terminus. Ceci P, et al. Nucleic Acids Res, 2004. PMID 15534364, Free PMC Article
    4. Dps protects cells against multiple stresses during stationary phase. Nair S, et al. J Bacteriol, 2004 Jul. PMID 15205421, Free PMC Article
    5. Fundamental structural units of the Escherichia coli nucleoid revealed by atomic force microscopy. Kim J, et al. Nucleic Acids Res, 2004. PMID 15060178, Free PMC Article

    See all (92) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Bridging DNA contacts allow Dps from E. coli to condense DNA.
      Title: Bridging DNA contacts allow Dps from E. coli to condense DNA.
    2. Multi-crystal data collection using synchrotron radiation as exemplified with low-symmetry crystals of Dps.
      Title: Multi-crystal data collection using synchrotron radiation as exemplified with low-symmetry crystals of Dps.
    3. Structural Rearrangement of Dps-DNA Complex Caused by Divalent Mg and Fe Cations.
      Title: Structural Rearrangement of Dps-DNA Complex Caused by Divalent Mg and Fe Cations.
    4. Spatial organization of Dps and DNA-Dps complexes.
      Title: Spatial organization of Dps and DNA-Dps complexes.
    5. A double-alanine mutant of E. coli Dps protein is unable to assemble into a cage due to disruption of key protein-protein interactions. Randomization of residues surrounding the double mutation afforded a repacked interface and proteins with recovered cage formation.
      Title: A Structure-Based Assembly Screen of Protein Cage Libraries in Living Cells: Experimentally Repacking a Protein-Protein Interface To Recover Cage Formation in an Assembly-Frustrated Mutant.
    6. three new candidates of E. coli nucleoid, namely DNA-binding protein from starved cells (Dps), host factor for phage Qbeta (Hfq) and suppressor of td(-) phenotype A (StpA)
      Title: Growth phase dependent changes in the structure and protein composition of nucleoid in Escherichia coli.
    7. Oxidative stress response proteins such as AhpF, Dps, and Fur, all of which belong to the oxyR regulon, were upregulated in Escherichia coli isolates from mice fed the lactose-rich diet.
      Title: Impact of nutritional factors on the proteome of intestinal Escherichia coli: induction of OxyR-dependent proteins AhpF and Dps by a lactose-rich diet.
    8. study investigated the role key protein-protein interactions play in the assembly and stability of the DPS mini-ferritin
      Title: Rational disruption of the oligomerization of the mini-ferritin E. coli DPS through protein-protein interface mutation.
    9. Unexpectedly, the authors found that dps expression is directly repressed by Mn(2+)-MntR.
      Title: The Escherichia coli K-12 MntR miniregulon includes dps, which encodes the major stationary-phase DNA-binding protein.
    10. In contrast, cells lacking Dps exhibited increased cellular copper concentrations compared to their wild-type parent.
      Title: The Dps protein of Escherichia coli is involved in copper homeostasis.
    Submit: New GeneRIF Correction See all GeneRIFs (15)

    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
    enables DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ferric iron binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables ferric iron binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables oxidoreductase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables oxidoreductase activity, acting on metal ions IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in chromosome condensation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in intracellular iron ion homeostasis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of DNA-templated DNA replication initiation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within response to starvation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within response to stress IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of DnaA-Dps complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in membrane HDA PubMed 
    located_in nucleoid IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    DNA protection during starvation protein

    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
      848408..848911 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_415333.1 DNA protection during starvation protein [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_415333.1

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A376MU58
      Conserved Domains (1) summary
      PRK09448
      Location:7 → 167
      PRK09448; DNA starvation/stationary phase protection protein Dps; Provisional
    Nucleotide Protein
    Heading Accession and Version

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