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    rph truncated RNase PH [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 948156, updated on 3-Dec-2024

    Summary

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    Official Symbol
    rph
    Official Full Name
    truncated RNase PH
    Primary source
    ECOCYC:EG10863
    Locus tag
    b3643
    See related
    ASAP:ABE-0011909
    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
    ECK3633
    Summary
    MG1655 has the rph-1 C-terminal frameshift mutation that severely reduces Rph activity. [More information is available at EcoGene: EG10863]. Rph has ribonuclease PH (RNase PH) activity . [More information is available at EcoCyc: EG10863].
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    Genomic context

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    Sequence:
    NC_000913.3 (3815863..3816549, complement)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene nucleoid occlusion factor SlmA Neighboring gene orotate phosphoribosyltransferase Neighboring gene putative RNase adaptor protein YicC Neighboring gene DNA damage-inducible protein D

    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. Multiple exoribonucleases catalyze maturation of the 3' terminus of 16S ribosomal RNA (rRNA). Sulthana S, et al. J Biol Chem, 2013 May 3. PMID 23532845, Free PMC Article
    2. Novel role for RNase PH in the degradation of structured RNA. Jain C. J Bacteriol, 2012 Aug. PMID 22609921, Free PMC Article
    3. Overexpression and rapid purification of the orfE/rph gene product, RNase PH of Escherichia coli. Jensen KF, et al. J Biol Chem, 1992 Aug 25. PMID 1512252
    4. Identification of the rph (RNase PH) gene of Bacillus subtilis: evidence for suppression of cold-sensitive mutations in Escherichia coli. Craven MG, et al. J Bacteriol, 1992 Jul. PMID 1624460, Free PMC Article
    5. RNase PH is essential for tRNA processing and viability in RNase-deficient Escherichia coli cells. Kelly KO, et al. J Biol Chem, 1992 Aug 15. PMID 1644789

    See all (36) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. findings demonstrate the rph-1 mutation leads to synthesis of a truncated functionally inactive RNase PH protein that interferes with the 5'-end maturation of specific tRNAs with short 5' leaders by RNase P in the absence of RppH an RNA pyrophosphohydrolase that converts primary 5' triphosphates into 5' monophosphates; data indicate the presence of the triphosphate interferes with RNase P binding to the pre-tRNA
      Title: The rph-1-Encoded Truncated RNase PH Protein Inhibits RNase P Maturation of Pre-tRNAs with Short Leader Sequences in the Absence of RppH.
    2. Authors narrowed down the sites of interaction in each enzyme to an acidic 16-amino acid region in the carboxy-terminal domain of RNase E and a basic 80-amino acid region in RNase PH including an alpha3 helix
      Title: Ribonuclease PH interacts with an acidic ribonuclease E site through a basic 80-amino acid domain.
    3. These results indicate that RNase PH plays a novel role in the degradation of structured RNAs and provides a potential explanation for the growth defects caused by an absence of the phosphorolytic RNases.
      Title: Novel role for RNase PH in the degradation of structured RNA.
    4. N-terminus verified by Edman degradation on complete protein
      Title: Escherichia coli orfE (upstream of pyrE) encodes RNase PH.
    Submit: New GeneRIF Correction

    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 3'-5'-RNA exonuclease activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables 3'-5'-RNA exonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables tRNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables tRNA nucleotidyltransferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables tRNA nucleotidyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within rRNA 3'-end processing EXP
    Inferred from Experiment
    more info
    		 PubMed 
    involved_in rRNA catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in rRNA catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in rRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within tRNA 3'-end processing EXP
    Inferred from Experiment
    more info
    		 PubMed 
    involved_in tRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    truncated RNase PH
    YP_009518822.1

    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
      3815863..3816549 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. YP_009518822.1 truncated RNase PH [Escherichia coli str. K-12 substr. MG1655]

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A376VX73
      Conserved Domains (1) summary
      PRK00173
      Location:1 → 211
      rph; ribonuclease PH; Reviewed
    Nucleotide Protein
    Heading Accession and Version

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