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

Gene ID: 946771, updated on 4-Apr-2024

Summary

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Gene symbol
yfbR
Gene description
dCMP phosphohydrolase
Primary source
ASAP:ABE-0007563
Locus tag
b2291
See related
ECOCYC:G7185
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 (9) 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.
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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 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
    A0A7L5V6L2
    Conserved Domains (1) summary
    PRK03826
    Location:2 → 196
    PRK03826; 5'-nucleotidase; Provisional
Nucleotide Protein
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