BDF1 chromatin-binding protein BDF1 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: BDF1
Official Full Name: chromatin-binding protein BDF1
Primary source: SGD:S000004391
Locus tag: YLR399C
See related: AllianceGenome:SGD:S000004391; FungiDB:YLR399C; VEuPathDB:YLR399C
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 several functions, including TFIID-class transcription factor complex binding activity; core promoter sequence-specific DNA binding activity; and lysine-acetylated histone binding activity. Involved in several processes, including positive regulation of double-strand break repair via homologous recombination; regulation of heterochromatin formation; and snRNA transcription. Part of Swr1 complex. Is active in chromatin. Human ortholog(s) of this gene implicated in several diseases, including Cornelia de Lange syndrome 6; idiopathic pulmonary fibrosis; lymphoma (multiple); male infertility (multiple); and photosensitivity disease. Orthologous to several human genes including BRD2 (bromodomain containing 2); BRD3 (bromodomain containing 3); and BRDT (bromodomain testis associated). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See BDF1 in Genome Data Viewer

Location:: chromosome: XII

Exon count:: 1

Sequence:: Chromosome: XII; NC_001144.5 (919536..921596, complement)

Chromosome XII - NC_001144.5 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001144.5

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Bdf1 bromodomains are required for the expression of key meiotic genes and the master regulator NDT80.
Title: Bdf1 Bromodomains Are Essential for Meiosis and the Expression of Meiotic-Specific Genes.
Overexpression of HAL2 in bdf1Delta mutant proterin increases gene expression in the iron-acquisition pathway.
Title: HAL2 overexpression induces iron acquisition in bdf1Δ cells and enhances their salt resistance.
This probably is the first report showing that the transcription factor Bdf1p regulates endocytosis under salt stress via LSP1, a major component of eisosomes that regulate the sites of endocytosis.
Title: The yeast BDF1 regulates endocytosis via LSP1 under salt stress.
These results suggested that Bdf1p likely regulated MEF1 expression negatively by regulating HDA1 positively
Title: Regulation of Saccharomyces cerevisiae MEF1 by Hda1p affects salt resistance of bdf1Δ mutant.
Bdf1p directly regulates BDF2 transcription by binding to its promoter.
Title: Interplay between BDF1 and BDF2 and their roles in regulating the yeast salt stress response.
Report interaction of transcriptional regulators with specific nucleosomes across the Saccharomyces genome.
Title: Interaction of transcriptional regulators with specific nucleosomes across the Saccharomyces genome.
N-terminal region of the Swr1 ATPase subunit is necessary and sufficient to direct association of Bdf1 and Swc7, as well as Arp4, Act1, Yaf9 and Swc4. This same region contains an additional H2AZ-H2B specific binding site.
Title: N terminus of Swr1 binds to histone H2AZ and provides a platform for subunit assembly in the chromatin remodeling complex.
The data demonstrate that, under the NaCl stress, the absence of Bdf1p leads to mitochondrial dysfunction, including decreasing of mitochondrial membrane potential and accumulation of reactive oxygen species, and chromatin fragmentation and condensation.
Title: Bdf1p deletion affects mitochondrial function and causes apoptotic cell death under salt stress.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

Gene Ontology Provided by SGD

Function	Evidence Code	Pubs
enables TFIID-class transcription factor complex binding	IDA Inferred from Direct Assay more info	PubMed
enables TFIID-class transcription factor complex binding	IPI Inferred from Physical Interaction more info	PubMed
enables chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables core promoter sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables histone binding	IEA Inferred from Electronic Annotation more info
enables lysine-acetylated histone binding	IBA Inferred from Biological aspect of Ancestor more info
enables lysine-acetylated histone binding	IDA Inferred from Direct Assay more info	PubMed
enables lysine-acetylated histone binding	IMP Inferred from Mutant Phenotype more info	PubMed

Process	Evidence Code	Pubs
involved_in DNA repair	IEA Inferred from Electronic Annotation more info
involved_in DNA repair	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in chromatin organization	IEA Inferred from Electronic Annotation more info
involved_in chromatin remodeling	IBA Inferred from Biological aspect of Ancestor more info
involved_in chromatin remodeling	IPI Inferred from Physical Interaction more info	PubMed
involved_in negative regulation of heterochromatin formation	IGI Inferred from Genetic Interaction more info	PubMed
involved_in negative regulation of heterochromatin formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of double-strand break repair via homologous recombination	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of gene expression	IEA Inferred from Electronic Annotation more info
involved_in regulation of silent mating-type cassette heterochromatin formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in snRNA transcription	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in sporulation resulting in formation of a cellular spore	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of Swr1 complex	IDA Inferred from Direct Assay more info	PubMed
located_in chromatin	IBA Inferred from Biological aspect of Ancestor more info
is_active_in chromatin	IDA Inferred from Direct Assay more info	PubMed
located_in chromatin	IDA Inferred from Direct Assay more info	PubMed
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: chromatin-binding protein BDF1

NP_013503.1

BET family transcriptional regulator; associates with TFIID, and is involved in transcription initiation at TATA-containing promoters; essential for meiosis and expression of meiosis-specific genes; binds acetylated histone H4 at double-strand break (DSB) sites, and promotes end resection, loading of RPA and Rad51p and ds break repair by homologous recombination; contains two bromodomains that correspond to the C-terminal region of mammalian TAF1; partially redundant with paralog Bdf2p

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

NC_001144.5 Reference assembly

Range

919536..921596 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001182287.1 → NP_013503.1 TPA: chromatin-binding protein BDF1 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_013503.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VZ34, P35817, Q06048

UniProtKB/TrEMBL

A7A1S4, N1P7C3

Conserved Domains (4) summary

COG5076
Location:1 → 373

COG5076; Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription]

PTZ00108
Location:386 → 647

PTZ00108; DNA topoisomerase 2-like protein; Provisional

pfam17035
Location:527 → 589

BET; Bromodomain extra-terminal - transcription regulation

cl02556
Location:339 → 417

Bromodomain; Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.