RTF1 Rtf1p [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: RTF1
Official Full Name: Rtf1p
Primary source: SGD:S000003213
Locus tag: YGL244W
See related: AllianceGenome:SGD:S000003213; FungiDB:YGL244W; VEuPathDB:YGL244W
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: CSL3
Summary: Enables RNA binding activity and RNA polymerase II C-terminal domain phosphoserine binding activity. Involved in several processes, including DNA metabolic process; RNA metabolic process; and regulation of DNA-templated transcription. Located in euchromatin and nucleus. Part of Cdc73/Paf1 complex. Orthologous to human RTF1 (RTF1 homolog, Paf1/RNA polymerase II complex component). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See RTF1 in Genome Data Viewer

Location:: chromosome: VII

Exon count:: 1

Sequence:: Chromosome: VII; NC_001139.9 (41498..43174)

Chromosome VII - NC_001139.9 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001139.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Spt6 directly interacts with Cdc73 and is required for Paf1 complex occupancy at active genes in Saccharomyces cerevisiae.
Title: Spt6 directly interacts with Cdc73 and is required for Paf1 complex occupancy at active genes in Saccharomyces cerevisiae.
Paf1 complex subunit Rtf1 stimulates H2B ubiquitylation by interacting with the highly conserved N-terminal helix of Rad6.
Title: Paf1 complex subunit Rtf1 stimulates H2B ubiquitylation by interacting with the highly conserved N-terminal helix of Rad6.
The article identifies proteins that directly bind the acidic patch in Saccharomyces cerevisiae: histone H2A binds to Paf1 complex subunit Rtf1 and FACT subunit Spt16.
Title: The nucleosome acidic patch directly interacts with subunits of the Paf1 and FACT complexes and controls chromatin architecture in vivo.
The histone modification domain of Paf1 complex subunit Rtf1 directly stimulates H2B ubiquitylation through an interaction with Rad6.
Title: The Histone Modification Domain of Paf1 Complex Subunit Rtf1 Directly Stimulates H2B Ubiquitylation through an Interaction with Rad6.
This study demonstrates that the recruitment of the Saccharomyces cerevisiae Paf1 complex to active genes requires a domain of Rtf1 that directly interacts with the Spt4-Spt5 complex.
Title: The recruitment of the Saccharomyces cerevisiae Paf1 complex to active genes requires a domain of Rtf1 that directly interacts with the Spt4-Spt5 complex.
A histone modification domain (HMD), when expressed as the only source of Rtf1, can promote H3 K4 and K79 methylation and H2B K123 ubiquitylation in yeast.
Title: Small region of Rtf1 protein can substitute for complete Paf1 complex in facilitating global histone H2B ubiquitylation in yeast.
Results reveal functionally important residues in Rtf1, better define the roles of Rtf1 in transcription and histone modification.
Title: Identification of a role for histone H2B ubiquitylation in noncoding RNA 3'-end formation through mutational analysis of Rtf1 in Saccharomyces cerevisiae.
Rtf1-dependent histone2B ubiquitylation and histone3 Lys4 methylation repress ARG1 expression
Title: The Paf1 complex represses ARG1 transcription in Saccharomyces cerevisiae by promoting histone modifications.
Results indicate that Rtf1 influences transcription and chromatin structure through several independent functional domains and that Rtf1 may function independently of its association with other members of the Paf1 complex.
Title: Rtf1 is a multifunctional component of the Paf1 complex that regulates gene expression by directing cotranscriptional histone modification.

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Pathways from PubChem

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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 RNA binding	IDA Inferred from Direct Assay more info	PubMed
enables RNA polymerase II C-terminal domain phosphoserine binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II C-terminal domain phosphoserine binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in DNA-templated transcription termination	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in global genome nucleotide-excision repair	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mRNA 3'-end processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in meiotic DNA double-strand break formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of transcription elongation by RNA polymerase I	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of transcription elongation by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IGI Inferred from Genetic Interaction more info	PubMed
involved_in regulation of transcription-coupled nucleotide-excision repair	IGI Inferred from Genetic Interaction more info	PubMed
involved_in sno(s)RNA 3'-end processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in sno(s)RNA transcription	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in snoRNA transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in transcription elongation by RNA polymerase II	IGI Inferred from Genetic Interaction more info	PubMed
involved_in transcription elongation by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of Cdc73/Paf1 complex	IBA Inferred from Biological aspect of Ancestor more info
part_of Cdc73/Paf1 complex	IPI Inferred from Physical Interaction more info	PubMed
located_in euchromatin	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: Rtf1p

NP_011270.1

Subunit of RNAPII-associated chromatin remodeling Paf1 complex; regulates gene expression by directing cotranscriptional histone modification, influences transcription and chromatin structure through several independent functional domains; directly or indirectly regulates DNA-binding properties of Spt15p and relative activities of different TATA elements; involved in transcription elongation as demonstrated by the G-less-based run-on (GLRO) assay

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_001139.9 Reference assembly

Range

41498..43174

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001181110.1 → NP_011270.1 TPA: Rtf1p [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_011270.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VV91, P53064, P89115

UniProtKB/TrEMBL

B3LHT6, C8Z814, G2WDL6

Conserved Domains (1) summary

COG5296
Location:1 → 558

COG5296; Transcription factor involved in TATA site selection and in elongation by RNA polymerase II [Transcription]