RPB4 DNA-directed RNA polymerase II subunit RPB4 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Gene symbol: RPB4
Gene description: DNA-directed RNA polymerase II subunit RPB4
Primary source: FungiDB:YJL140W
Locus tag: YJL140W
See related: SGD:S000003676; AllianceGenome:SGD:S000003676; VEuPathDB:YJL140W
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: CTF15
Summary: Enables translation initiation factor binding activity. Contributes to RNA-directed 5'-3' RNA polymerase activity; single-stranded DNA binding activity; and single-stranded RNA binding activity. Involved in RNA metabolic process; mRNA export from nucleus in response to heat stress; and positive regulation of translational initiation. Located in P-body and nucleus. Part of RNA polymerase II, core complex. Orthologous to human POLR2D (RNA polymerase II subunit D). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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See RPB4 in Genome Data Viewer

Location:: chromosome: X

Exon count:: 1

Sequence:: Chromosome: X; NC_001142.9 (150961..151626)

Chromosome X - NC_001142.9 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001142.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Rpb4/7, a key element of RNA pol II to coordinate mRNA synthesis in the nucleus with cytoplasmic functions in Saccharomyces cerevisiae.
Title: Rpb4/7, a key element of RNA pol II to coordinate mRNA synthesis in the nucleus with cytoplasmic functions in Saccharomyces cerevisiae.
Structural visualization of de novo transcription initiation by Saccharomyces cerevisiae RNA polymerase II.
Title: Structural visualization of de novo transcription initiation by Saccharomyces cerevisiae RNA polymerase II.
Numerous Post-translational Modifications of RNA Polymerase II Subunit Rpb4/7 Link Transcription to Post-transcriptional Mechanisms.
Title: Numerous Post-translational Modifications of RNA Polymerase II Subunit Rpb4/7 Link Transcription to Post-transcriptional Mechanisms.
Rpb4 and Puf3 imprint and post-transcriptionally control the stability of a common set of mRNAs in yeast.
Title: Rpb4 and Puf3 imprint and post-transcriptionally control the stability of a common set of mRNAs in yeast.
The yeast exoribonuclease Xrn1 and associated factors modulate RNA polymerase II processivity in 5' and 3' gene regions.
Title: The yeast exoribonuclease Xrn1 and associated factors modulate RNA polymerase II processivity in 5' and 3' gene regions.
Normal coupling between mRNA synthesis and decay requires wild-type configuration of Rpb4, and fusing Rpb4 to Rpb2 compromises this coupling.
Title: Dissociation of Rpb4 from RNA polymerase II is important for yeast functionality.
Our data indicate that the environmental stress response that occurs in foot mutants depends mostly on a global post-transcriptional regulation mechanism which, in turn, depends on Rpb4-mRNA imprinting
Title: Rpb1 foot mutations demonstrate a major role of Rpb4 in mRNA stability during stress situations in yeast.
The results show that the Rpb4/7 heterodimer in Saccharomyces cerevisiae plays a key role in controlling phosphorylation of the carboxy terminal domain of the Rpb1 subunit of RNA polymerase II.
Title: Rpb4/7 facilitates RNA polymerase II CTD dephosphorylation.
The interplay between Ccr4-Not and Rpb4/7 described here suggests a mechanism for how the cell coordinates mRNA synthesis and decay
Title: The Rpb4/7 module of RNA polymerase II is required for carbon catabolite repressor protein 4-negative on TATA (Ccr4-not) complex to promote elongation.
Rpb4 is a bona fide Pol II core subunit that functions mainly in mRNA synthesis.
Title: Rpb4 subunit functions mainly in mRNA synthesis by RNA polymerase II.

Submit: New GeneRIF Correction See all GeneRIFs (22)

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
contributes_to RNA-dependent RNA polymerase activity	IDA Inferred from Direct Assay more info	PubMed
enables nucleotide binding	IEA Inferred from Electronic Annotation more info
contributes_to single-stranded DNA binding	IDA Inferred from Direct Assay more info	PubMed
contributes_to single-stranded RNA binding	IDA Inferred from Direct Assay more info	PubMed
enables translation initiation factor binding	IBA Inferred from Biological aspect of Ancestor more info
enables translation initiation factor binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in DNA-templated transcription initiation	IEA Inferred from Electronic Annotation more info
involved_in RNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of translational initiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in transcription initiation at RNA polymerase II promoter	IBA Inferred from Biological aspect of Ancestor more info
involved_in transcription initiation at RNA polymerase II promoter	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
part_of DNA-directed RNA polymerase complex	IEA Inferred from Electronic Annotation more info
located_in P-body	IDA Inferred from Direct Assay more info	PubMed
located_in P-body	IEA Inferred from Electronic Annotation more info
part_of RNA polymerase II, core complex	IBA Inferred from Biological aspect of Ancestor more info
part_of RNA polymerase II, core complex	IDA Inferred from Direct Assay more info	PubMed
part_of RNA polymerase complex	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	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: DNA-directed RNA polymerase II subunit RPB4

NP_012395.1

RNA polymerase II subunit B32; forms dissociable heterodimer with Rpb7p; Rpb4/7 dissociates from RNAPII as Ser2 CTD phosphorylation increases; Rpb4/7 regulates cellular lifespan via mRNA decay process; involved in recruitment of 3'-end processing factors to transcribing RNAPII complex, export of mRNA to cytoplasm under stress conditions; also involved in translation initiation

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_001142.9 Reference assembly

Range

150961..151626

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001181573.1 → NP_012395.1 TPA: DNA-directed RNA polymerase II subunit RPB4 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_012395.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VW44, P20433

UniProtKB/TrEMBL

A0A6A5PTI6, A6ZQI9, B3LPX8, C7GPZ0, D3UF54, G2WGN0, N1P3Y0

Conserved Domains (1) summary

COG5250
Location:15 → 221

RPB4; RNA polymerase II, fourth largest subunit [Transcription]