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    yrdD putative DNA topoisomerase [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 947782, updated on 4-Apr-2024

    Summary

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    Gene symbol
    yrdD
    Gene description
    putative DNA topoisomerase
    Primary source
    ASAP:ABE-0010768
    Locus tag
    b3283
    See related
    ECOCYC:G7699
    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
    ECK3270
    Summary
    AFMB Structural Genomics target Number 20 (http://afmb.cnrs-mrs.fr/article171.html). [More information is available at EcoGene: EG12841].
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    Genomic context

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    Sequence:
    NC_000913.3 (3431420..3431962, complement)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene DUF1488 domain-containing protein YrdB Neighboring gene shikimate dehydrogenase Neighboring gene L-threonylcarbamoyladenylate synthase Neighboring gene DUF494 domain-containing protein Smg Neighboring gene protein Smf Neighboring gene peptide deformylase

    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. Iron and zinc binding activity of Escherichia coli topoisomerase I homolog YrdD. Cheng Z, et al. Biometals, 2014 Apr. PMID 24469504, Free PMC Article
    2. Production of clastogenic DNA precursors by the nucleotide metabolism in Escherichia coli. Budke B, et al. Mol Microbiol, 2010 Jan. PMID 19943897, Free PMC Article
    3. The YrdC protein--a putative ribosome maturation factor. Kaczanowska M, et al. Biochim Biophys Acta, 2005 Feb 14. PMID 15716138
    4. Temperature sensitivity caused by mutant release factor 1 is suppressed by mutations that affect 16S rRNA maturation. Kaczanowska M, et al. J Bacteriol, 2004 May. PMID 15126466, Free PMC Article
    5. The binary protein-protein interaction landscape of Escherichia coli. Rajagopala SV, et al. Nat Biotechnol, 2014 Mar. PMID 24561554, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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 DNA topoisomerase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA topoisomerase type I (single strand cut, ATP-independent) activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables iron ion binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables single-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables zinc ion binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in DNA topological change IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    putative DNA topoisomerase

    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
      3431420..3431962 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. YP_026210.1 putative DNA topoisomerase [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for YP_026210.1

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A8S7YPZ6
      Conserved Domains (2) summary
      COG0551
      Location:51 → 180
      YrdD; ssDNA-binding Zn-finger and Zn-ribbon domains of topoisomerase 1 [Replication, recombination and repair]
      PRK06599
      Location:1 → 99
      PRK06599; DNA topoisomerase I; Validated
    Nucleotide Protein
    Heading Accession and Version

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