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    roxA 50S ribosomal protein L16-arginine 3-hydroxylase [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 945391, updated on 17-Dec-2024

    Summary

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    Official Symbol
    roxA
    Official Full Name
    50S ribosomal protein L16-arginine 3-hydroxylase
    Primary source
    ECOCYC:EG11430
    Locus tag
    b1128
    See related
    ASAP:ABE-0003802
    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
    ECK1114; ycfD
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    Genomic context

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    Sequence:
    NC_000913.3 (1187119..1188240, complement)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene spermidine preferential ABC transporter ATP binding subunit Neighboring gene peptidase T Neighboring gene sensor histidine kinase PhoQ Neighboring gene DNA-binding transcriptional dual regulator PhoP Neighboring gene adenylosuccinate lyase

    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. Molecular analysis of the Escherichia coli phoP-phoQ operon. Kasahara M, et al. J Bacteriol, 1992 Jan. PMID 1729240, Free PMC Article
    2. Identification and functional analysis of 'hypothetical' genes expressed in Haemophilus influenzae. Kolker E, et al. Nucleic Acids Res, 2004. PMID 15121896, Free PMC Article
    3. Structure and functional analysis of YcfD, a novel 2-oxoglutarate/Fe²⁺-dependent oxygenase involved in translational regulation in Escherichia coli. van Staalduinen LM, et al. J Mol Biol, 2014 May 1. PMID 24530688
    4. Oxygenase-catalyzed ribosome hydroxylation occurs in prokaryotes and humans. Ge W, et al. Nat Chem Biol, 2012 Dec. PMID 23103944, Free PMC Article
    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 (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The crystal structure of YcfD at 2.7 A resolution reveals that YcfD is structurally similar to known JmjC proteins and possesses the characteristic double-stranded beta-helix fold or cupin domain.
      Title: Structure and functional analysis of YcfD, a novel 2-oxoglutarate/Fe²⁺-dependent oxygenase involved in translational regulation in Escherichia coli.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    Gene Ontology Provided by EcoCyc

    Function Evidence Code Pubs
    enables 2-oxoglutarate-dependent dioxygenase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables 2-oxoglutarate-dependent dioxygenase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables dioxygenase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ferrous iron binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein homodimerization activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within post-translational protein modification IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    50S ribosomal protein L16-arginine 3-hydroxylase
    NP_415646.4

    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
      1187119..1188240 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_415646.4 50S ribosomal protein L16-arginine 3-hydroxylase [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_415646.4

      Status: PROVISIONAL

      UniProtKB/TrEMBL
      A0A1X3JJK1, A0A829KYB2, B3Y0B7
      Conserved Domains (1) summary
      COG2850
      Location:1 → 373
      RoxA; Ribosomal protein L16 Arg81 hydroxylase, contains JmjC domain [Translation, ribosomal structure and biogenesis]
    Nucleotide Protein
    Heading Accession and Version

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