wdr-23 DDB1- and CUL4-associated factor 11 homolog [Caenorhabditis elegans] - Gene

Summary

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Gene symbol: wdr-23
Gene description: DDB1- and CUL4-associated factor 11 homolog
Primary source: WormBase:WBGene00008419
Locus tag: CELE_D2030.9
See related: AllianceGenome:WB:WBGene00008419
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: Involved in several processes, including determination of adult lifespan; negative regulation of cellular response to manganese ion; and positive regulation of neuron death. Located in several cellular components, including mitochondrial outer membrane; striated muscle dense body; and synaptic vesicle. Is expressed in several structures, including hermaphrodite gonad; hypodermis; intestine; muscle cell; and nervous system. Orthologous to human DCAF11 (DDB1 and CUL4 associated factor 11). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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Location:: chromosome: I

Exon count:: 11

Sequence:: Chromosome: I; NC_003279.8 (7596505..7602221)

Chromosome I - NC_003279.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003279.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Nuclear and cytoplasmic WDR-23 isoforms mediate differential effects on GEN-1 and SKN-1 substrates.
Title: Nuclear and cytoplasmic WDR-23 isoforms mediate differential effects on GEN-1 and SKN-1 substrates.
We propose that WDR-23 and SKN-1 coordinate with the BLI-3/TSP-15/DOXA-1 dual oxidase complex in response to iodide-triggered oxidative stress.
Title: WDR-23 and SKN-1/Nrf2 Coordinate with the BLI-3 Dual Oxidase in Response to Iodide-Triggered Oxidative Stress.
we identify and confirm the mutations in xrep-2, xrep-3, and xrep-4 The xrep-2 gene is alh-6, an ortholog of a human gene mutated in familial hyperprolinemia. The xrep-3 mutation is a gain-of-function allele of skn-1 The xrep-4 gene is F46F11.6, which encodes a F-box-containing protein. We demonstrate that xrep-4 alters the stability of WDR-23 (xrep-1), a key regulator of SKN-1 (xrep-3).
Title: A Genetic Analysis of the Caenorhabditis elegans Detoxification Response.
a missense mutation in the conserved XREP-4 F-box domain that reduces interaction with SKR-1 but not WDR-23 strongly attenuates SKN-1-dependent gene activation. These results are consistent with XREP-4 influencing the SKN-1 stress response by functioning as a bridge between WDR-23 and the ubiquitin ligase component SKR-1.
Title: F-Box Protein XREP-4 Is a New Regulator of the Oxidative Stress Response in Caenorhabditis elegans.
ur results identify WDR23 as an alternative regulator of NRF2 proteostasis and uncover a cellular pathway that regulates NRF2 activity and capacity for cytoprotection independently of KEAP1.
Title: WDR23 regulates NRF2 independently of KEAP1.
We also show that SKR-1/2 functions upstream of the WD40 repeat protein WDR-23, which binds to and inhibits SKN-1. Together, these results identify a novel p38 MAPK independent signaling mechanism that activates SKN-1 via SKR-1/2 and involves WDR-23.
Title: The Skp1 Homologs SKR-1/2 Are Required for the Caenorhabditis elegans SKN-1 Antioxidant/Detoxification Response Independently of p38 MAPK.
diverse wdr-23 phenotypes are dependent on SKN-1; beneficial and detrimental phenotypes of wdr-23 and skn-1 can be partially decoupled; SKN-1 activation delays degenerative tissue changes during aging
Title: Characterization of skn-1/wdr-23 phenotypes in Caenorhabditis elegans; pleiotrophy, aging, glutathione, and interactions with other longevity pathways.
Data show that SKN-1 protein levels, nuclear accumulation, and activity are repressed by the WD40 repeat protein WDR-23, which interacts with the CUL-4/DDB-1 ubiquitin ligase to presumably target the transcription factor for proteasomal degradation.
Title: The WD40 repeat protein WDR-23 functions with the CUL4/DDB1 ubiquitin ligase to regulate nuclear abundance and activity of SKN-1 in Caenorhabditis elegans.

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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

D2030.9 (e-PCR)
- UniSTS:307405

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables RNA polymerase II-specific DNA-binding transcription factor binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in cellular detoxification	IGI Inferred from Genetic Interaction more info	PubMed
involved_in determination of adult lifespan	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of cellular response to manganese ion	IGI Inferred from Genetic Interaction more info	PubMed
involved_in negative regulation of cellular response to manganese ion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of multicellular organism growth	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of cellular response to stress	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of Cul4-RING E3 ubiquitin ligase complex	IBA Inferred from Biological aspect of Ancestor more info
located_in axon	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrial outer membrane	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrion	IDA Inferred from Direct Assay more info	PubMed
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in striated muscle dense body	IDA Inferred from Direct Assay more info	PubMed
located_in synaptic vesicle	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: DDB1- and CUL4-associated factor 11 homolog

NP_001250545.1

Confirmed by transcript evidence

NP_001293282.1

Confirmed by transcript evidence

NP_001293283.1

Confirmed by transcript evidence

NP_492124.1

Confirmed by transcript evidence

NP_492125.1

Partially 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_003279.8 Reference assembly

Range

7596505..7602221

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001263616.4 → NP_001250545.1 DDB1- and CUL4-associated factor 11 homolog [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001250545.1

Status: REVIEWED

UniProtKB/TrEMBL

C6KRL4

Conserved Domains (2) summary

sd00039
Location:167 → 205

7WD40; WD40 repeat [structural motif]

cl29593
Location:168 → 506

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
NM_059723.7 → NP_492124.1 DDB1- and CUL4-associated factor 11 homolog [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_492124.1

Status: REVIEWED

UniProtKB/Swiss-Prot

P90794, Q9U3K9

Conserved Domains (3) summary

COG2319
Location:119 → 511

WD40; WD40 repeat [General function prediction only]

sd00039
Location:167 → 205

7WD40; WD40 repeat [structural motif]

cl02567
Location:168 → 514

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
NM_059724.4 → NP_492125.1 DDB1- and CUL4-associated factor 11 homolog [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_492125.1

Status: REVIEWED

UniProtKB/Swiss-Prot

P90794

Conserved Domains (3) summary

COG2319
Location:78 → 470

WD40; WD40 repeat [General function prediction only]

sd00039
Location:126 → 164

7WD40; WD40 repeat [structural motif]

cl02567
Location:127 → 473

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
NM_001306353.3 → NP_001293282.1 DDB1- and CUL4-associated factor 11 homolog [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001293282.1

Status: REVIEWED

UniProtKB/TrEMBL

S6FN32

Conserved Domains (2) summary

sd00039
Location:94 → 132

7WD40; WD40 repeat [structural motif]

cl29593
Location:95 → 441

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
NM_001306354.3 → NP_001293283.1 DDB1- and CUL4-associated factor 11 homolog [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001293283.1

Status: REVIEWED

UniProtKB/TrEMBL

S6FWQ6

Conserved Domains (2) summary

sd00039
Location:94 → 132

7WD40; WD40 repeat [structural motif]

cl29593
Location:95 → 433

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...