ced-4 Cell death protein 4 [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: ced-4
Official Full Name: Cell death protein 4
Primary source: WormBase:WBGene00000418
Locus tag: CELE_C35D10.9
See related: AllianceGenome:WB:WBGene00000418
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 several functions, including ATP binding activity; BH domain binding activity; and peptidase activator activity. Involved in several processes, including muscle cell cellular homeostasis; positive regulation of proteolysis; and regulation of apoptotic process. Located in several cellular components, including cytosol; mitochondrion; and perinuclear region of cytoplasm. Part of caspase complex. Is expressed in several structures, including anal sphincter muscle; germ cell; germ line; intestine; and nervous system. Orthologous to human APAF1 (apoptotic peptidase activating factor 1). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See ced-4 in Genome Data Viewer

Location:: chromosome: III

Exon count:: 8

Sequence:: Chromosome: III; NC_003281.10 (4852325..4855171)

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?

The pro-apoptotic function of the C. elegans BCL-2 homolog CED-9 requires interaction with the APAF-1 homolog CED-4.
Title: The pro-apoptotic function of the C. elegans BCL-2 homolog CED-9 requires interaction with the APAF-1 homolog CED-4.
Molecular dynamics studies of CED-4/CED-9/EGL-1 ternary complex reveal CED-4 release mechanism in the linear apoptotic pathway of Caenorhabditis elegans.
Title: Molecular dynamics studies of CED-4/CED-9/EGL-1 ternary complex reveal CED-4 release mechanism in the linear apoptotic pathway of Caenorhabditis elegans.
CED-4 CARD domain residues can modulate non-apoptotic neuronal regeneration functions independently from apoptosis.
Title: CED-4 CARD domain residues can modulate non-apoptotic neuronal regeneration functions independently from apoptosis.
A protein interaction cascade involving EGL-1, CED-9, CED-4, and CED-3 results in the activation of the key cell death protease CED-3, which is tightly controlled by multiple positive and negative regulators.
Title: Programmed Cell Death During Caenorhabditis elegans Development.
a working model in which two molecules of CED-3 zymogen, through specific recognition, are forced into the hutch of the CED-4 apoptosome, consequently undergoing dimerization and autocatalytic maturation
Title: Mechanistic insights into CED-4-mediated activation of CED-3.
CED-4 caspase plays a role in axon repair.
Title: The core apoptotic executioner proteins CED-3 and CED-4 promote initiation of neuronal regeneration in Caenorhabditis elegans.
CED-9 associates with the outer mitochondrial membrane within distinct foci that do not overlap with CED-4
Title: Evidence that CED-9/Bcl2 and CED-4/Apaf-1 localization is not consistent with the current model for C. elegans apoptosis induction.
Genetic evidence confirmed that apoptosis induced by loss of ifg-1 p170 mRNA was caspase (ced-3) and apoptosome (ced-4/Apaf-1) dependent.
Title: Cap-independent translation promotes C. elegans germ cell apoptosis through Apaf-1/CED-4 in a caspase-dependent mechanism.
The structure of the CED-4 apoptosome reveals shared principles for the NB-ARC family of AAA(+) ATPases and suggests a mechanism for the activation of CED-3.
Title: Crystal structure of the Caenorhabditis elegans apoptosome reveals an octameric assembly of CED-4.
CED-4 plays a pivotal role in activating apoptosis and restricting cell and nuclear size, thereby determining the appropriate overall size of an animal.
Title: ced-4 and proto-oncogene tfg-1 antagonistically regulate cell size and apoptosis in C. 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

C35D10.9 (e-PCR)
- UniSTS:309259

F26A1.1 (e-PCR)
- UniSTS:309950

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables ADP binding	IEA Inferred from Electronic Annotation more info
enables ATP binding	IDA Inferred from Direct Assay more info	PubMed
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables BH1 domain binding	IPI Inferred from Physical Interaction more info	PubMed
enables BH3 domain binding	IPI Inferred from Physical Interaction more info	PubMed
enables caspase binding	IPI Inferred from Physical Interaction more info	PubMed
enables cysteine-type endopeptidase activator activity involved in apoptotic process	IDA Inferred from Direct Assay more info	PubMed
enables cysteine-type endopeptidase activator activity involved in apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
enables endopeptidase activator activity	IDA Inferred from Direct Assay more info	PubMed
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables magnesium ion binding	IDA Inferred from Direct Assay more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables peptidase activator activity involved in apoptotic process	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in actin filament depolymerization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in activation of cysteine-type endopeptidase activity	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in activation of cysteine-type endopeptidase activity involved in apoptotic process	IDA Inferred from Direct Assay more info	PubMed
involved_in activation of cysteine-type endopeptidase activity involved in apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in apoptotic process	IGI Inferred from Genetic Interaction more info	PubMed
involved_in apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in apoptotic process involved in development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in defense response to Gram-negative bacterium	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in embryo development ending in birth or egg hatching	IGI Inferred from Genetic Interaction more info	PubMed
involved_in embryonic morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
involved_in muscle cell cellular homeostasis	IGI Inferred from Genetic Interaction more info	PubMed
involved_in negative regulation of apoptotic process	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of apoptotic process	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of apoptotic process involved in development	IGI Inferred from Genetic Interaction more info	PubMed
involved_in positive regulation of apoptotic process involved in development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of protein processing	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of synapse pruning	IGI Inferred from Genetic Interaction more info	PubMed
involved_in positive regulation of synapse pruning	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in regulation of cell adhesion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of cell size	IGI Inferred from Genetic Interaction more info	PubMed
involved_in regulation of development, heterochronic	IGI Inferred from Genetic Interaction more info	PubMed
involved_in regulation of protein stability	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
part_of caspase complex	IMP Inferred from Mutant Phenotype more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytosol	IDA Inferred from Direct Assay more info	PubMed
located_in membrane	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrion	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrion	IEA Inferred from Electronic Annotation more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in perinuclear region of cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in perinuclear region of cytoplasm	IEA Inferred from Electronic Annotation more info
part_of protein-containing complex	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: Cell death protein 4

NP_001021202.1

Confirmed by transcript evidence

NP_001021203.1

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

4852325..4855171

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001026031.5 → NP_001021202.1 Cell death protein 4 [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001021202.1

Status: REVIEWED

UniProtKB/Swiss-Prot

P30429

Conserved Domains (2) summary

smart00114
Location:2 → 89

CARD; Caspase recruitment domain

pfam00931
Location:133 → 384

NB-ARC; NB-ARC domain
NM_001026032.3 → NP_001021203.1 Cell death protein 4 [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001021203.1

Status: REVIEWED

UniProtKB/Swiss-Prot

P30429, Q5BHI5

Conserved Domains (3) summary

smart00114
Location:2 → 89

CARD; Caspase recruitment domain

pfam00931
Location:133 → 440

NB-ARC; NB-ARC domain

pfam13191
Location:133 → 274

AAA_16; AAA ATPase domain