ROK1 RNA-dependent ATPase ROK1 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Gene symbol: ROK1
Gene description: RNA-dependent ATPase ROK1
Primary source: FungiDB:YGL171W
Locus tag: YGL171W
See related: SGD:S000003139; AllianceGenome:SGD:S000003139; VEuPathDB:YGL171W
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 helicase activity. Involved in maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) and snoRNA localization. Located in nucleolus. Part of 90S preribosome. Orthologous to human DDX52 (DExD-box helicase 52). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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See ROK1 in Genome Data Viewer

Location:: chromosome: VII

Exon count:: 1

Sequence:: Chromosome: VII; NC_001139.9 (182390..184084)

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?

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.
findings revealed that Rok1 protein synthesis is repressed by Psk2 and Skp1; this repression appeared to be mediated through the ROK1 uORF1; Tub4 plays a positive role in regulating Rok1 protein synthesis and likely after the uORF1-mediated inhibitory regulation
Title: Identification of Psk2, Skp1, and Tub4 as trans-acting factors for uORF-containing ROK1 mRNA in Saccharomyces cerevisiae.
Rrp5 provides specificity to the otherwise nonspecific biochemical activities of the Rok1 DEAD-domain.
Title: Cofactor-dependent specificity of a DEAD-box protein.
Rok1 was required specifically for the release of snR30.
Title: Quantitative analysis of snoRNA association with pre-ribosomes and release of snR30 by Rok1 helicase.
Immunoprecipitation assays demonstrate the association of Rok1p 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.

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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 ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP hydrolysis activity	IEA Inferred from Electronic Annotation more info
enables ATP-dependent activity, acting on RNA	IDA Inferred from Direct Assay more info	PubMed
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables RNA helicase activity	IDA Inferred from Direct Assay more info	PubMed
enables RNA helicase activity	IEA Inferred from Electronic Annotation more info
enables helicase activity	IEA Inferred from Electronic Annotation more info
enables hydrolase activity	IEA Inferred from Electronic Annotation more info
enables nucleic acid binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
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 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	IBA Inferred from Biological aspect of Ancestor more info
involved_in maturation of SSU-rRNA	IDA Inferred from Direct Assay more info	PubMed
involved_in maturation of SSU-rRNA	IEA Inferred from Electronic Annotation more info
involved_in rRNA processing	IEA Inferred from Electronic Annotation more info
involved_in ribosome biogenesis	IEA Inferred from Electronic Annotation more info
involved_in snoRNA localization	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of 90S preribosome	HDA more info	PubMed
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

General protein information

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Preferred Names: RNA-dependent ATPase ROK1

NP_011344.1

EC 3.6.4.13

RNA-dependent ATPase; involved in pre-rRNA processing at sites A0, A1, and A2, and in control of cell cycle progression; contains two upstream open reading frames (uORFs) in 5' untranslated region which regulate translation

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

182390..184084

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001181036.1 → NP_011344.1 TPA: RNA-dependent ATPase ROK1 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_011344.1

Status: REVIEWED

UniProtKB/Swiss-Prot

A6ZU15, D6VTY1, P45818

UniProtKB/TrEMBL

A0A8H4C2E4, B3LHM3, C7GPN6, C8Z880, N1P4C1

Conserved Domains (2) summary

COG0513
Location:101 → 560

SrmB; Superfamily II DNA and RNA helicase [Replication, recombination and repair]

cd17957
Location:133 → 336

DEADc_DDX52; DEAD-box helicase domain of DEAD box protein 52