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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
    Heading Accession and Version

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