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    pdeF cyclic di-GMP phosphodiesterase PdeF [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 946968, updated on 3-Dec-2024

    Summary

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    Official Symbol
    pdeF
    Official Full Name
    cyclic di-GMP phosphodiesterase PdeF
    Primary source
    ECOCYC:G7314
    Locus tag
    b2503
    See related
    ASAP:ABE-0008240
    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
    ECK2499; yfgF
    Summary
    YfgF has a central GGDEF putative diguanylate cyclase, then a C-terminal putative cyclic-di-GMP phosphodiesterase EAL domain. [More information is available at EcoGene: EG14202]. YfgF is an inner membrane protein with nine predicted transmembrane domains. [More information is available at EcoCyc: G7314].
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    Genomic context

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    Sequence:
    NC_000913.3 (2626695..2628938, complement)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene polyphosphate kinase Neighboring gene exopolyphosphatase Neighboring gene nickel/cobalt stress response protein YfgG Neighboring gene lipoprotein YfgH

    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. Escherichia coli K-12 YfgF is an anaerobic cyclic di-GMP phosphodiesterase with roles in cell surface remodelling and the oxidative stress response. Lacey MM, et al. Microbiology (Reading), 2010 Sep. PMID 20522491
    2. The Escherichia coli yhjA gene, encoding a predicted cytochrome c peroxidase, is regulated by FNR and OxyR. Partridge JD, et al. Microbiology (Reading), 2007 May. PMID 17464064
    3. A comprehensive genetic characterization of bacterial motility. Girgis HS, et al. PLoS Genet, 2007 Sep. PMID 17941710, Free PMC Article
    4. C-di-GMP: the dawning of a novel bacterial signalling system. Römling U, et al. Mol Microbiol, 2005 Aug. PMID 16045609
    5. Gene expression patterns and differential input into curli fimbriae regulation of all GGDEF/EAL domain proteins in Escherichia coli. Sommerfeldt N, et al. Microbiology (Reading), 2009 Apr. PMID 19332833

    See all (15) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. YfgF is involved in cell surface remodelling and the oxidative stress response.
      Title: Escherichia coli K-12 YfgF is an anaerobic cyclic di-GMP phosphodiesterase with roles in cell surface remodelling and the oxidative stress response.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    Gene Ontology Provided by EcoCyc

    Function Evidence Code Pubs
    enables cyclic-guanylate-specific phosphodiesterase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables cyclic-guanylate-specific phosphodiesterase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein homodimerization activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within cellular response to anoxia IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within cellular response to hydrogen peroxide IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of single-species biofilm formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    cyclic di-GMP phosphodiesterase PdeF
    NP_416998.1

    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
      2626695..2628938 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_416998.1 cyclic di-GMP phosphodiesterase PdeF [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_416998.1

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A377DNJ9
      Conserved Domains (3) summary
      smart00267
      Location:328 → 480
      GGDEF; diguanylate cyclase
      smart00052
      Location:497 → 735
      EAL; Putative diguanylate phosphodiesterase
      pfam05231
      Location:15 → 320
      MASE1
    Nucleotide Protein
    Heading Accession and Version

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