PCF11 Pcf11p [Saccharomyces cerevisiae S288C] - Gene

Summary

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Gene symbol: PCF11
Gene description: Pcf11p
Primary source: SGD:S000002636
Locus tag: YDR228C
See related: AllianceGenome:SGD:S000002636
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 RNA polymerase II complex binding activity and mRNA binding activity. Involved in RNA metabolic process. Located in cytosol and nucleus. Part of mRNA cleavage factor complex. Orthologous to human PCF11 (PCF11 cleavage and polyadenylation factor subunit). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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Location:: chromosome: IV

Exon count:: 1

Sequence:: Chromosome: IV; NC_001136.10 (921926..923806, complement)

Chromosome IV - NC_001136.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001136.10

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Study describes a novel flower-like structure for the C-terminal CCHC zinc-finger domain of ScPcf11 that is only distantly related to other zinc coordinating domains.
Title: The C terminus of Pcf11 forms a novel zinc-finger structure that plays an essential role in mRNA 3'-end processing.
Pcf11, a component of the cleavage and polyadenylation complex (CPAC), is also generally required for NRD-dependent transcription termination through the action of its C-terminal domain (CTD)-interacting domain
Title: Pcf11 orchestrates transcription termination pathways in yeast.
X-ray crystallographic evidence of an extended binding interface of Pcf11p with Clp1p which is likely to be S. cerevisiae specific.
Title: Structural basis for ATP loss by Clp1p in a G135R mutant protein.
Mutations in Pcf11 that perturb Clp1 binding cause temperature-sensitive growth and affect cleavage, polyadenylation and transcription termination.
Title: The interaction of Pcf11 and Clp1 is needed for mRNA 3'-end formation and is modulated by amino acids in the ATP-binding site.
CF IA is reconstituted from Rna14, Rna15, Pcf11, and Clp1 proteins in 2:2:1:1 stoichiometry.
Title: Reconstitution of CF IA from overexpressed subunits reveals stoichiometry and provides insights into molecular topology.
Data report the involvement of yeast RNA processing factors Pta1 and Pcf11 in alternative 3'-end RNA processing.
Title: Involvement of Pta1, Pcf11 and a KlCYC1 AU-rich element in alternative RNA 3'-end processing selection in yeast.
Tethering of Pcf11 to nascent mRNA is sufficient to enhance Yra1 recruitment. Interaction with Pcf11 can therefore explain Yra1 binding to the TEC independently of Sub2
Title: Cotranscriptional recruitment of the mRNA export factor Yra1 by direct interaction with the 3' end processing factor Pcf11.
NMR backbone assignment of PCF11 CTD binding domain [letter]
Title: Backbone assignment of PCF11 CTD binding domain.
Molecular model of a ternary complex of Clp1-ATP and the Clp1-binding region of Pcf11.
Title: Structure of a nucleotide-bound Clp1-Pcf11 polyadenylation factor.
Pcf11 CID recognizes the trans-trans form of the phosphorylated peptide
Title: Key features of the interaction between Pcf11 CID and RNA polymerase II CTD.

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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 RNA binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II complex binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II complex binding	IDA Inferred from Direct Assay more info	PubMed
enables RNA polymerase II complex binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II complex binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables RNA polymerase II complex binding	IPI Inferred from Physical Interaction more info	PubMed
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables mRNA binding	IDA Inferred from Direct Assay more info	PubMed
enables mRNA binding	IEA Inferred from Electronic Annotation more info
enables mRNA binding	IMP Inferred from Mutant Phenotype 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 termination	IEA Inferred from Electronic Annotation more info
involved_in mRNA 3'-end processing	IEA Inferred from Electronic Annotation more info
involved_in mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in termination of RNA polymerase II transcription	IBA Inferred from Biological aspect of Ancestor more info
involved_in termination of RNA polymerase II transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in termination of RNA polymerase II transcription	IEA Inferred from Electronic Annotation more info
involved_in termination of RNA polymerase II transcription	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in termination of RNA polymerase II transcription, exosome-dependent	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in termination of RNA polymerase II transcription, poly(A)-coupled	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	IDA Inferred from Direct Assay more info	PubMed
part_of mRNA cleavage factor complex	IBA Inferred from Biological aspect of Ancestor more info
part_of mRNA cleavage factor complex	IEA Inferred from Electronic Annotation more info
part_of mRNA cleavage factor complex	IPI Inferred from Physical Interaction more info	PubMed
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: Pcf11p

NP_010514.3

mRNA 3' end processing factor; essential component of cleavage and polyadenylation factor IA (CF IA), involved in pre-mRNA 3' end processing and in transcription termination; binds C-terminal domain of largest subunit of RNA pol II (Rpo21p); required for gene looping; relocalizes to the cytosol in response to hypoxia

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_001136.10 Reference assembly

Range

921926..923806 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001180536.3 → NP_010514.3 TPA: Pcf11p [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_010514.3

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VSL0, P39081, Q04932

UniProtKB/TrEMBL

A0A8H8UND4, A6ZYI2, B3LG59, B5VGB5, C7GVC4, C8Z5D9, N1P6M1

Conserved Domains (3) summary

cd16982
Location:9 → 135

CID_Pcf11; CID (CTD-Interacting Domain) of Pcf11

pfam11526
Location:467 → 562

CFIA_Pcf11; Subunit of cleavage factor IA Pcf11

pfam18439
Location:421 → 446

zf_UBZ; Ubiquitin-Binding Zinc Finger