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    RCO1 Rco1p [ Saccharomyces cerevisiae S288C ]

    Gene ID: 855097, updated on 9-Dec-2024

    Summary

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    Official Symbol
    RCO1
    Official Full Name
    Rco1p
    Primary source
    SGD:S000004680
    Locus tag
    YMR075W
    See related
    AllianceGenome:SGD:S000004680; FungiDB:YMR075W; VEuPathDB:YMR075W
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Saccharomyces cerevisiae S288C (strain: S288C)
    Lineage
    Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
    Summary
    Predicted to enable zinc ion binding activity. Involved in regulation of nucleobase-containing compound metabolic process and transcription elongation by RNA polymerase II. Located in nucleus. Part of Rpd3S complex. [provided by Alliance of Genome Resources, Dec 2024]
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    Genomic context

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    See RCO1 in Genome Data Viewer
    Location:
    chromosome: XIII
    Exon count:
    1
    Sequence:
    Chromosome: XIII; NC_001145.3 (413982..416036)

    Chromosome XIII - NC_001145.3Genomic Context describing neighboring genes Neighboring gene Irc21p Neighboring gene Sdd2p Neighboring gene uncharacterized protein Neighboring gene Pds5p Neighboring gene tRNA-Val

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_001145.3

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Structural basis for the recognition of methylated histone H3K36 by the Eaf3 subunit of histone deacetylase complex Rpd3S. Xu C, et al. Structure, 2008 Nov 12. PMID 18818090, Free PMC Article
    2. Combined action of PHD and chromo domains directs the Rpd3S HDAC to transcribed chromatin. Li B, et al. Science, 2007 May 18. PMID 17510366
    3. Nascent transcript sequencing visualizes transcription at nucleotide resolution. Churchman LS, et al. Nature, 2011 Jan 20. PMID 21248844, Free PMC Article
    4. Gene loops enhance transcriptional directionality. Tan-Wong SM, et al. Science, 2012 Nov 2. PMID 23019609, Free PMC Article
    5. Antisense transcription-dependent chromatin signature modulates sense transcript dynamics. Brown T, et al. Mol Syst Biol, 2018 Feb 12. PMID 29440389, Free PMC Article

    See all (121) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Functional dissection of Rco1 revealed that besides its known chromatin-recognition interfaces, other regions of Rco1 are also critical for Rpd3S to recognize nucleosomes.
      Title: Homodimeric PHD Domain-containing Rco1 Subunit Constitutes a Critical Interaction Hub within the Rpd3S Histone Deacetylase Complex.
    2. The association of Rpd3S with chromatin requires its Eaf3 subunit, which binds histone H3 methylated at lysine 36.
      Title: Structural basis for the recognition of methylated histone H3K36 by the Eaf3 subunit of histone deacetylase complex Rpd3S.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by SGD

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding RCA
    inferred from Reviewed Computational Analysis
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in chromatin organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of antisense RNA transcription IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of DNA-templated DNA replication initiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in transcription elongation by RNA polymerase II IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of Rpd3S complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of Rpd3S complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of histone deacetylase complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus HDA PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    Rco1p
    NP_013791.1
    • Essential component of the Rpd3S histone deacetylase complex; interacts with Eaf3p

    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_001145.3 Reference assembly

      Range
      413982..416036
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001182574.1 → NP_013791.1  TPA: Rco1p [Saccharomyces cerevisiae S288C]

      See identical proteins and their annotated locations for NP_013791.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      D6VZP9, Q04779
      UniProtKB/TrEMBL
      B3LLW8, C8ZES7, N1P5G6
      Conserved Domains (2) summary
      cd15534
      Location:416 → 469
      PHD2_PHF12_Rco1; PHD finger 2 found in PHD finger protein 12 (PHF12), yeast Rco1, and similar proteins
      cd15535
      Location:262 → 306
      PHD1_Rco1; PHD finger 1 found in Saccharomyces cerevisiae transcriptional regulatory protein Rco1 and similar proteins
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q04779.1

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