rde-4 DRBM domain-containing protein [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: rde-4
Official Full Name: DRBM domain-containing protein
Primary source: WormBase:WBGene00004326
Locus tag: CELE_T20G5.11
See related: AllianceGenome:WB:WBGene00004326
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Caenorhabditis elegans (strain: Bristol N2)
Lineage: Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary: Enables double-stranded RNA binding activity; protein homodimerization activity; and single-stranded RNA binding activity. Involved in regulatory ncRNA-mediated post-transcriptional gene silencing and siRNA processing. Part of ribonucleoprotein complex. Human ortholog(s) of this gene implicated in dystonia 16. Orthologous to human TARBP2 (TARBP2 subunit of RISC loading complex) and PRKRA (protein activator of interferon induced protein kinase EIF2AK2). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See rde-4 in Genome Data Viewer

Location:: chromosome: III

Exon count:: 4

Sequence:: Chromosome: III; NC_003281.10 (10217302..10218646, complement)

Chromosome III - NC_003281.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003281.10

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Silencing by feeding RNAi can be restricted to a tissue with RDE-4.
Title: The double-stranded RNA binding protein RDE-4 can act cell autonomously during feeding RNAi in C. elegans.
an ability of RDE-4 to function non-autonomously in foreign RNA responses in C. elegans.
Title: On the nature of in vivo requirements for rde-4 in RNAi and developmental pathways in C. elegans.
RDE-4 regulate overlapping sets of genes in Caenorhabditis elegans, we identified an important role for these factors in the negative modulation of transcription of the insulin/PI3 signaling-dependent kinase PDK-1
Title: A conserved PHD finger protein and endogenous RNAi modulate insulin signaling in Caenorhabditis elegans.
high levels of dsRNA allow RNAi in the absence of RDE-4 in C. elegans
Title: In C. elegans, high levels of dsRNA allow RNAi in the absence of RDE-4.
RDE-4 preferentially binds long dsRNA, while TRBP binds siRNA with an affinity that is independent of dsRNA length.
Title: dsRNA binding properties of RDE-4 and TRBP reflect their distinct roles in RNAi.
rde-4 preferentially binds long dsRNA and its dimerization is necessary for cleavage of dsRNA to siRNA.
Title: RDE-4 preferentially binds long dsRNA and its dimerization is necessary for cleavage of dsRNA to siRNA.
The majority of Dicer-regulated genes are not dependent on RDE-4 or RDE-1, including the X-linked genes.
Title: Genes misregulated in C. elegans deficient in Dicer, RDE-4, or RDE-1 are enriched for innate immunity genes.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

T20G5.11 (e-PCR)
- UniSTS:310915

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables double-stranded RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables double-stranded RNA binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein homodimerization activity	IPI Inferred from Physical Interaction more info	PubMed
enables siRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables single-stranded RNA binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in regulation of regulatory ncRNA processing	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulatory ncRNA-mediated post-transcriptional gene silencing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in siRNA processing	IBA Inferred from Biological aspect of Ancestor more info
involved_in siRNA processing	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of RISC complex	IBA Inferred from Biological aspect of Ancestor more info
part_of RISC-loading complex	IBA Inferred from Biological aspect of Ancestor more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
part_of ribonucleoprotein complex	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: DRBM domain-containing protein

NP_499265.1

Confirmed by transcript evidence

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_003281.10 Reference assembly

Range

10217302..10218646 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_066864.5 → NP_499265.1 DRBM domain-containing protein [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_499265.1

Status: REVIEWED

UniProtKB/TrEMBL

G5EBF5

Conserved Domains (1) summary

smart00358
Location:170 → 233

DSRM; Double-stranded RNA binding motif