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phnP 5-phospho-alpha-D-ribosyl 1,2-cyclic phosphate phosphodiesterase [ Escherichia coli str. K-12 substr. MG1655 ]

Gene ID: 948600, updated on 3-Dec-2024

Summary

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Official Symbol
phnP
Official Full Name
5-phospho-alpha-D-ribosyl 1,2-cyclic phosphate phosphodiesterase
Primary source
ECOCYC:EG10725
Locus tag
b4092
See related
ASAP:ABE-0013412
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
ECK4085
Summary
Phosphonate utilization is cryptic in K-12. [More information is available at EcoGene: EG10725]. PhnP is required for growth on phosphonates and phosphite. phnP is part of an operon that is phosphate-starvation inducible and is required for the use of phosphonates and phosphite as phosphorus sources . phnP is absolutely required for growth when the upstream gene phnN is present, but in a phnNphnP double mutant, some growth occurs . [More information is available at EcoCyc: EG10725].
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Genomic context

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Sequence:
NC_000913.3 (4314344..4315102, complement)

NC_000913.3Genomic Context describing neighboring genes Neighboring gene allose-6-phosphate isomerase/ribose-5-phosphate isomerase B Neighboring gene protein YjdP Neighboring gene aminoalkylphosphonate N-acetyltransferase Neighboring gene ribose 1,5-bisphosphate phosphokinase Neighboring gene RPnTP hydrolase Neighboring gene methylphosphonate degradation complex subunit PhnL

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. Structure of PhnP, a phosphodiesterase of the carbon-phosphorus lyase pathway for phosphonate degradation. Podzelinska K, et al. J Biol Chem, 2009 Jun 19. PMID 19366688, Free PMC Article
  2. Expression, purification and preliminary diffraction studies of PhnP. Podzelinska K, et al. Acta Crystallogr Sect F Struct Biol Cryst Commun, 2008 Jun 1. PMID 18540074, Free PMC Article
  3. Accumulation of intermediates of the carbon-phosphorus lyase pathway for phosphonate degradation in phn mutants of Escherichia coli. Hove-Jensen B, et al. J Bacteriol, 2010 Jan. PMID 19854894, Free PMC Article
  4. Mapping and molecular cloning of the phn (psiD) locus for phosphonate utilization in Escherichia coli. Wanner BL, et al. J Bacteriol, 1990 Mar. PMID 2155195, Free PMC Article
  5. Phosphate-independent expression of the carbon-phosphorus lyase activity of Escherichia coli. Yakovleva GM, et al. Appl Microbiol Biotechnol, 1998 May. PMID 9650256

See all (18) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Alteration of H200 to alanine in PhnP resulted in a 6-33-fold decrease in activity.
    Title: Structure and mechanism of PhnP, a phosphodiesterase of the carbon-phosphorus lyase pathway.
  2. the role of PhnP was examined by (31)P NMR spectrometry on the culture supernatants of E. coli phn mutants grown in the presence of alkylphosphonic acid or phosphite.
    Title: Physiological role of phnP-specified phosphoribosyl cyclic phosphodiesterase in catabolism of organophosphonic acids by the carbon-phosphorus lyase pathway.
  3. The overall fold of PhnP is very similar to that of the tRNase Z endonucleases but lacks the long exosite module used by these enzymes to bind their tRNA substrates.
    Title: Structure of PhnP, a phosphodiesterase of the carbon-phosphorus lyase pathway for phosphonate degradation.
Submit: New GeneRIF Correction

Pathways from PubChem

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General gene information

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Homology

Gene Ontology Provided by EcoCyc

Function Evidence Code Pubs
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables manganese ion binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables phosphoribosyl 1,2-cyclic phosphate phosphodiesterase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables phosphoribosyl 1,2-cyclic phosphate phosphodiesterase activity IEA
Inferred from Electronic Annotation
more info
  
enables phosphoric diester hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables protein homodimerization activity IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in organic phosphonate catabolic process IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within organic phosphonate catabolic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 

General protein information

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Preferred Names
5-phospho-alpha-D-ribosyl 1,2-cyclic phosphate phosphodiesterase
NP_418516.1

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
    4314344..4315102 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NP_418516.1 5-phospho-alpha-D-ribosyl 1,2-cyclic phosphate phosphodiesterase [Escherichia coli str. K-12 substr. MG1655]

    See identical proteins and their annotated locations for NP_418516.1

    Status: PROVISIONAL

    UniProtKB/TrEMBL
    A0A376ME12
    Conserved Domains (1) summary
    PRK11244
    Location:13 → 251
    phnP; carbon-phosphorus lyase complex accessory protein; Provisional
Nucleotide Protein
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