DEF1 DNA damage-responsive RNA polymerase-degradation factor DEF1 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: DEF1
Official Full Name: DNA damage-responsive RNA polymerase-degradation factor DEF1
Primary source: SGD:S000001537
Locus tag: YKL054C
See related: AllianceGenome:SGD:S000001537; FungiDB:YKL054C; VEuPathDB:YKL054C
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Saccharomyces cerevisiae S288C (strain: S288C)
Lineage: Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Also known as: VID31
Summary: Enables transcription factor TFIIH holo complex binding activity. Involved in several processes, including DNA metabolic process; positive regulation of transcription initiation by RNA polymerase II; and ubiquitin-dependent protein catabolic process. Is active in nucleus. [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See DEF1 in Genome Data Viewer

Location:: chromosome: XI

Exon count:: 1

Sequence:: Chromosome: XI; NC_001143.9 (336537..338753, complement)

Chromosome XI - NC_001143.9 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001143.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

RNA polymerase II transcription attenuation at the yeast DNA repair gene DEF1 is biologically significant and dependent on the Hrp1 RNA-recognition motif.
Title: RNA polymerase II transcription attenuation at the yeast DNA repair gene DEF1 is biologically significant and dependent on the Hrp1 RNA-recognition motif.
The Def1 is a novel factor for ubiquitin-dependent degradation of excess Nop1.
Title: Def1 mediates the degradation of excess nucleolar protein Nop1 in budding yeast.
Def1 does not play a critical role in damage-induced mutagenesis
Title: Deletion of the DEF1 gene does not confer UV-immutability but frequently leads to self-diploidization in yeast Saccharomyces cerevisiae.
Def1 binds TFIIH and initiates RNA polymerase II transcription.
Title: Def1 interacts with TFIIH and modulates RNA polymerase II transcription.
Def1, known to promote ubiquitination and degradation of stalled RNA polymerase complex, also directs NER to AP lesions on the transcribed strand of an actively transcribed gene but that its function is dependent on metabolic state of the yeast cells.
Title: Def1 and Dst1 play distinct roles in repair of AP lesions in highly transcribed genomic regions.
TLS polymerase REV1 carries out DNA lesion bypass only after the Def1-assisted removal of Pol3 from the stalled replication fork.
Title: Def1 promotes the degradation of Pol3 for polymerase exchange to occur during DNA-damage--induced mutagenesis in Saccharomyces cerevisiae.
These results indicate that Def1 bridges the interaction between RNAPII and the Elongin-Cullin ubiquitin ligase complex via an interaction between its CUE domain and a UbH in the Ela1 subunit of the Ela1-Elc1 adaptor complex.
Title: Proteasome-mediated processing of Def1, a critical step in the cellular response to transcription stress.
Def1p plays multiple roles in yeast, including telomere maintenance
Title: Def1p is involved in telomere maintenance in budding yeast.

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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 DNA binding	IEA Inferred from Electronic Annotation more info
enables transcription factor TFIIH holo complex binding	IDA Inferred from Direct Assay more info	PubMed
enables ubiquitin binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in DNA damage response	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in DNA repair	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of transcription initiation by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein ubiquitination	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in telomere maintenance	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in transcription-coupled nucleotide-excision repair	IGI Inferred from Genetic Interaction more info	PubMed
involved_in ubiquitin-dependent protein catabolic process	IDA Inferred from Direct Assay more info	PubMed
involved_in ubiquitin-dependent protein catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in chromosome	IEA Inferred from Electronic Annotation more info
located_in chromosome, telomeric region	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IMP Inferred from Mutant Phenotype more info	PubMed
located_in nucleus	IMP Inferred from Mutant Phenotype more info	PubMed

General protein information

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Preferred Names: DNA damage-responsive RNA polymerase-degradation factor DEF1

NP_012869.1

RNAPII degradation factor; forms a complex with Rad26p in chromatin, enables ubiquitination and proteolysis of RNAPII present in an elongation complex; interacts with general transcription factor TFIIH; mutant is deficient in Zip1p loading onto chromosomes during meiosis; null mutant is prone to self-diploidization; null mutation can be functionally complemented by human UBAP2 and UBAP2

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_001143.9 Reference assembly

Range

336537..338753 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001179620.1 → NP_012869.1 TPA: DNA damage-responsive RNA polymerase-degradation factor DEF1 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_012869.1

Status: REVIEWED

UniProtKB/Swiss-Prot

C7GP20, D6VXN3, P35732

UniProtKB/TrEMBL

N1P2D5

Conserved Domains (1) summary

cd14368
Location:23 → 61

CUE_DEF1_like; CUE domain found in fungal RNA polymerase II degradation factor 1 (DEF1) and similar proteins