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    yfbR dCMP phosphohydrolase [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 946771, updated on 17-Dec-2024

    Summary

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    Official Symbol
    yfbR
    Official Full Name
    dCMP phosphohydrolase
    Primary source
    ECOCYC:G7185
    Locus tag
    b2291
    See related
    ASAP:ABE-0007563
    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
    ECK2285
    Summary
    Divalent metal required for catalytic activity. [More information is available at EcoGene: EG14102]. YfbR is a 5'-deoxynucleotidase that functions as a dCMP phosphohydrolase in a salvage pathway for the synthesis of dUMP in a dcd deoA mutant . [More information is available at EcoCyc: G7185].
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    Genomic context

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    Sequence:
    NC_000913.3 (2408862..2409461)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene DNA-binding transcriptional dual regulator LrhA Neighboring gene glutamate--pyruvate aminotransferase AlaA Neighboring gene putative transporter YfbS Neighboring gene hexitol phosphatase A

    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. The deoxycytidine pathway for thymidylate synthesis in Escherichia coli. Weiss B. J Bacteriol, 2007 Nov. PMID 17827303, Free PMC Article
    2. Structural insight into the mechanism of substrate specificity and catalytic activity of an HD-domain phosphohydrolase: the 5'-deoxyribonucleotidase YfbR from Escherichia coli. Zimmerman MD, et al. J Mol Biol, 2008 Apr 18. PMID 18353368, Free PMC Article
    3. Enzyme genomics: Application of general enzymatic screens to discover new enzymes. Kuznetsova E, et al. FEMS Microbiol Rev, 2005 Apr. PMID 15808744
    4. General enzymatic screens identify three new nucleotidases in Escherichia coli. Biochemical characterization of SurE, YfbR, and YjjG. Proudfoot M, et al. J Biol Chem, 2004 Dec 24. PMID 15489502
    5. A functional update of the Escherichia coli K-12 genome. Serres MH, et al. Genome Biol, 2001. PMID 11574054, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Three 2.1-A-resolution crystal structures (one in the free state and two complexed with natural substrates) of an HD-domain phosphohydrolase, the Escherichia coli 5'-nucleotidase YfbR were presented.
      Title: Structural insight into the mechanism of substrate specificity and catalytic activity of an HD-domain phosphohydrolase: the 5'-deoxyribonucleotidase YfbR from Escherichia coli.
    2. identified the presence of nucleotidase activity in three uncharacterized E. coli proteins, SurE, YfbR, and YjjG, that belong to different enzyme superfamilies
      Title: General enzymatic screens identify three new nucleotidases in Escherichia coli. Biochemical characterization of SurE, YfbR, and YjjG.
    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
    enables 5'-deoxynucleotidase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables 5'-deoxynucleotidase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables 5'-deoxynucleotidase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables cobalt ion binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables identical protein binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables thymidylate 5'-phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within dUMP biosynthetic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within pyrimidine deoxyribonucleotide salvage IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    dCMP phosphohydrolase
    NP_416794.1

    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
      2408862..2409461
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_416794.1 dCMP phosphohydrolase [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_416794.1

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A2W6P3I9
      Conserved Domains (1) summary
      PRK03826
      Location:2 → 196
      PRK03826; 5'-nucleotidase; Provisional
    Nucleotide Protein
    Heading Accession and Version

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