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    rnhA ribonuclease HI [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 946955, updated on 3-Dec-2024

    Summary

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    Official Symbol
    rnhA
    Official Full Name
    ribonuclease HI
    Primary source
    ECOCYC:EG10860
    Locus tag
    b0214
    See related
    ASAP:ABE-0000717
    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
    cer; dasF; ECK0214; herA; rnh; sdrA; sin
    Summary
    RNase H cleaves RNA in RNA-DNA hybrids. [More information is available at EcoCyc: EG10860].
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    Genomic context

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    Sequence:
    NC_000913.3 (235535..236002, complement)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene membrane-bound lytic murein transglycosylase D Neighboring gene hydroxyacylglutathione hydrolase GloB Neighboring gene protein YkfO Neighboring gene putative S-adenosyl-L-methionine-dependent methyltransferase Neighboring gene DNA polymerase III subunit epsilon Neighboring gene tRNA-Asp

    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 putative substrate recognition loop of Escherichia coli ribonuclease H is not essential for activity. Keck JL, et al. J Biol Chem, 1996 Aug 16. PMID 8702700
    2. Isolation and mapping of a mutation in Escherichia coli with altered levels of ribonuclease H. Carl PL, et al. J Bacteriol, 1980 Oct. PMID 6998952, Free PMC Article
    3. Studies of the interactions between Escherichia coli ribonuclease HI and its substrate. Uchiyama Y, et al. J Mol Biol, 1994 Nov 4. PMID 7525971
    4. Isolation and characterization of host mutants defective in msDNA synthesis: role of ribonuclease H in msDNA synthesis. Lima TM, et al. Plasmid, 1995 May. PMID 7568472
    5. Binding of nucleic acids to E. coli RNase HI observed by NMR and CD spectroscopy. Oda Y, et al. Nucleic Acids Res, 1993 Oct 11. PMID 7694232, Free PMC Article

    See all (125) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. RNase H is an exo- and endoribonuclease with asymmetric directionality, depending on the binding mode to the structural variants of RNA:DNA hybrids.
      Title: RNase H is an exo- and endoribonuclease with asymmetric directionality, depending on the binding mode to the structural variants of RNA:DNA hybrids.
    2. DNA Breaks-Mediated Fitness Cost Reveals RNase HI as a New Target for Selectively Eliminating Antibiotic-Resistant Bacteria.
      Title: DNA Breaks-Mediated Fitness Cost Reveals RNase HI as a New Target for Selectively Eliminating Antibiotic-Resistant Bacteria.
    3. Interaction with single-stranded DNA-binding protein localizes ribonuclease HI to DNA replication forks and facilitates R-loop removal.
      Title: Interaction with single-stranded DNA-binding protein localizes ribonuclease HI to DNA replication forks and facilitates R-loop removal.
    4. Data show that the catalytic domains of E. coli and human RNase H have nearly identical sequence preferences, which correlate with the efficiency of RNase H-recruiting antisense oligonucleotides.
      Title: RNase H sequence preferences influence antisense oligonucleotide efficiency.
    5. RNase HI recruits RnlB to RnlA through N-repeated domain for inhibiting RnlA toxicity and thus plays two contrary roles in the regulation of RnlA-RnlB system.
      Title: RnlB Antitoxin of the Escherichia coli RnlA-RnlB Toxin-Antitoxin Module Requires RNase HI for Inhibition of RnlA Toxin Activity.
    6. The authors propose that RNase H-deficient mutants convert some R-loops into R-tracts, which progress into R-gaps and then to double-strand breaks-explaining why R-tracts do not accumulate in RNase H-deficient cells, while double-strand breaks do.
      Title: RNase HII Saves rnhA Mutant Escherichia coli from R-Loop-Associated Chromosomal Fragmentation.
    7. Here, authors provide the evidence that RNase HI is an essential factor for activation of RnlA.
      Title: RNase HI stimulates the activity of RnlA toxin in Escherichia coli.
    8. a single change at Ile25 (I25A) resulted in the equilibrium population of the RNase H intermediate under near-native conditions.
      Title: A single mutation at residue 25 populates the folding intermediate of E. coli RNase H and reveals a highly dynamic partially folded ensemble.
    9. Data show that overproduction of RNase HI limits the accumulation of hypernegative supercoiling, thereby preventing extensive RNA degradation.
      Title: Hypernegative supercoiling inhibits growth by causing RNA degradation.
    10. RNase HI plays a more central role in DNA topology than previously thought.
      Title: Depletion of RNase HI activity in Escherichia coli lacking DNA topoisomerase I leads to defects in DNA supercoiling and segregation.
    Submit: New GeneRIF Correction See all GeneRIFs (16)

    General gene information

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    Homology

    Gene Ontology Provided by EcoCyc

    Function Evidence Code Pubs
    enables RNA-DNA hybrid ribonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA-DNA hybrid ribonuclease activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables RNA-DNA hybrid ribonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables endonuclease activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables endonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables magnesium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleic acid binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in DNA replication, removal of RNA primer IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within DNA replication, removal of RNA primer IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in RNA catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    ribonuclease HI
    NP_414750.1

    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
      235535..236002 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_414750.1 ribonuclease HI [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_414750.1

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A376FS30, A0A5B9ALC8
      Conserved Domains (1) summary
      PRK00203
      Location:2 → 151
      rnhA; ribonuclease H; Reviewed
    Nucleotide Protein
    Heading Accession and Version

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