RRP5 Rrp5p [Saccharomyces cerevisiae S288C] - Gene

Summary

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Gene symbol: RRP5
Gene description: Rrp5p
Primary source: FungiDB:YMR229C
Locus tag: YMR229C
See related: SGD:S000004842; AllianceGenome:SGD:S000004842; VEuPathDB:YMR229C
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 binding activity. Involved in ribosome biogenesis. Located in nucleolus. Part of small-subunit processome. Orthologous to human PDCD11 (programmed cell death 11). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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See RRP5 in Genome Data Viewer

Location:: chromosome: XIII

Exon count:: 1

Sequence:: Chromosome: XIII; NC_001145.3 (725934..731123, complement)

Chromosome XIII - NC_001145.3 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001145.3

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Data show that ATP-bound DEAD-box protein Rok1, but not adenosine diphosphate (ADP)-bound Rok1, stabilizes Rrp5 protein binding to 40S ribosomes.
Title: The DEAD-box Protein Rok1 Orchestrates 40S and 60S Ribosome Assembly by Promoting the Release of Rrp5 from Pre-40S Ribosomes to Allow for 60S Maturation.
Rrp5 provides specificity to the otherwise nonspecific biochemical activities of the Rok1 DEAD-domain.
Title: Cofactor-dependent specificity of a DEAD-box protein.
The results show that the large ribosomal subunit (LSU) biogenesis factor Noc1p of Saccharomyces cerevisiae can simultaneously interact with the LSU biogenesis factor Noc2p and Rrp5p.
Title: Rrp5p, Noc1p and Noc2p form a protein module which is part of early large ribosomal subunit precursors in S. cerevisiae.
Immunoprecipitation assays demonstrate the association of Rrp5p with 35S pre-rRNA in pre-ribosomes.
Title: U3 snoRNP and Rrp5p associate independently with Saccharomyces cerevisiae 35S pre-rRNA, but Rrp5p is essential for association of Rok1p.
association of Rrp5p with the pre-ribosome, Rrp5 binds to the RNA site with single-stranded U stretches
Title: Rrp5p, a trans-acting factor in yeast ribosome biogenesis, is an RNA-binding protein with a pronounced preference for U-rich sequences.
three distal S1 motifs of Saccharomyces cerevisiae Rrp5p have roles in pre-rRNA processing at site A(2) but not in production of functional 40S subunits
Title: Deletion of the three distal S1 motifs of Saccharomyces cerevisiae Rrp5p abolishes pre-rRNA processing at site A(2) without reducing the production of functional 40S subunits.

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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 RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables U3 snoRNA binding	IDA Inferred from Direct Assay more info	PubMed
enables box C/D sno(s)RNA binding	IDA Inferred from Direct Assay more info	PubMed
enables box H/ACA snoRNA binding	IDA Inferred from Direct Assay more info	PubMed
enables mRNA binding	HDA more info	PubMed
enables nucleic acid binding	IEA Inferred from Electronic Annotation more info
enables poly(U) RNA binding	IDA Inferred from Direct Assay more info	PubMed
enables rRNA primary transcript binding	IDA Inferred from Direct Assay more info	PubMed
enables snoRNA binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in 90S preribosome assembly	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in RNA processing	IEA Inferred from Electronic Annotation more info
involved_in endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in endonucleolytic cleavage in ITS1 upstream of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in maturation of SSU-rRNA	IDA Inferred from Direct Assay more info	PubMed
involved_in rRNA processing	IEA Inferred from Electronic Annotation more info
involved_in ribosome biogenesis	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of 90S preribosome	HDA more info	PubMed
located_in nucleolus	HDA more info	PubMed
is_active_in nucleolus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleolus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleolus	IEA Inferred from Electronic Annotation more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of ribonucleoprotein complex	IEA Inferred from Electronic Annotation more info
part_of small-subunit processome	IBA Inferred from Biological aspect of Ancestor more info
part_of small-subunit processome	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: Rrp5p

NP_013956.1

RNA binding protein involved in synthesis of 18S and 5.8S rRNAs; component of ribosomal small subunit (SSU) processome and 90S preribosome; required for pre-rRNA packaging and compaction of processome into dense terminal balls; part of Mak21p-Noc2p-Rrp5p module that associates with nascent pre-rRNA during transcription with role in biogenesis of large ribosomal subunit; binds single stranded tracts of U's; relocalizes from nucleolus to nucleus upon DNA replication stress

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_001145.3 Reference assembly

Range

725934..731123 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001182736.1 → NP_013956.1 TPA: Rrp5p [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_013956.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6W054, Q05022

UniProtKB/TrEMBL

A0A8H4BWU8, C8ZF93, N1NXM1

Conserved Domains (3) summary

COG0457
Location:1458 → 1667

TPR; Tetratricopeptide (TPR) repeat [General function prediction only]

COG0539
Location:276 → 888

RpsA; Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]

cd05693
Location:116 → 246

S1_Rrp5_repeat_hs1_sc1; Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces ...