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    BYE1 [ Saccharomyces cerevisiae S288C ]

    Gene ID: 853865, updated on 11-Sep-2024

    Summary

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    Official Symbol
    BYE1
    Primary source
    SGD:S000001488
    Locus tag
    YKL005C
    See related
    AllianceGenome:SGD:S000001488; FungiDB:YKL005C; VEuPathDB:YKL005C
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Saccharomyces cerevisiae S288C (strain: S288C)
    Lineage
    Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
    Summary
    Enables chromatin binding activity and methylated histone binding activity. Involved in negative regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Orthologous to human DIDO1 (death inducer-obliterator 1). [provided by Alliance of Genome Resources, Apr 2022]
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    Genomic context

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    Location:
    chromosome: XI
    Exon count:
    1
    Sequence:
    Chromosome: XI; NC_001143.9 (433093..434877, complement)

    Chromosome XI - NC_001143.9Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene ribosomal 60S subunit protein L14A Neighboring gene inositol phosphorylceramide synthase Neighboring gene mitochondrial 37S ribosomal protein YmS16

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_001143.9

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. PHD and TFIIS-Like domains of the Bye1 transcription factor determine its multivalent genomic distribution. Pinskaya M, et al. PLoS One, 2014. PMID 25029256, Free PMC Article
    2. The ESS1 prolyl isomerase and its suppressor BYE1 interact with RNA pol II to inhibit transcription elongation in Saccharomyces cerevisiae. Wu X, et al. Genetics, 2003 Dec. PMID 14704159, Free PMC Article
    3. Structures of RNA polymerase II complexes with Bye1, a chromatin-binding PHF3/DIDO homologue. Kinkelin K, et al. Proc Natl Acad Sci U S A, 2013 Sep 17. PMID 24003114, Free PMC Article
    4. The PHD finger: implications for chromatin-mediated transcriptional regulation. Aasland R, et al. Trends Biochem Sci, 1995 Feb. PMID 7701562
    5. The Ess1 prolyl isomerase is linked to chromatin remodeling complexes and the general transcription machinery. Wu X, et al. EMBO J, 2000 Jul 17. PMID 10899126, Free PMC Article

    See all (35) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Once Pol II is engaged into elongation, Bye1 binds directly to the transcriptional machinery, modulating its progression along the gene.
      Title: PHD and TFIIS-Like domains of the Bye1 transcription factor determine its multivalent genomic distribution.
    2. Bye1 is a chromatin transcription factor that links histones with active posttranslational modifications to transcribing Pol II.
      Title: Structures of RNA polymerase II complexes with Bye1, a chromatin-binding PHF3/DIDO homologue.
    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 RNA polymerase II transcription regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables methylated histone binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables zinc ion binding RCA
    inferred from Reviewed Computational Analysis
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in negative regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IC
    Inferred by Curator
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    Bye1p
    NP_012921.3
    • Negative regulator of transcription elongation; contains a TFIIS-like domain that associates with chromatin and a PHD domain that interacts with H3K4me3; multicopy suppressor of temperature-sensitive ess1 mutations, binds RNA polymerase II large subunit

    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_001143.9 Reference assembly

      Range
      433093..434877 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001179571.3 → NP_012921.3  TPA: Bye1p [Saccharomyces cerevisiae S288C]

      See identical proteins and their annotated locations for NP_012921.3

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      A6ZZW1, D6VXT2, P36106
      UniProtKB/TrEMBL
      G2WI27, N1P807
      Conserved Domains (3) summary
      smart00510
      Location:235 → 354
      TFS2M; Domain in the central regions of transcription elongation factor S-II (and elsewhere)
      cd15570
      Location:74 → 131
      PHD_Bye1p_SIZ1_like; PHD domain found in Saccharomyces cerevisiae bypass of ESS1 protein 1 (Bye1p), the E3 Sumo Ligase SIZ1, and similar proteins
      pfam07744
      Location:434 → 589
      SPOC; SPOC domain
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P36106.1

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