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P30429 (CED4_CAEEL) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 110. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
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Names and origin

Protein namesRecommended name:
Cell death protein 4
Gene names
Name:ced-4
ORF Names:C35D10.9
OrganismCaenorhabditis elegans [Reference proteome]
Taxonomic identifier6239 [NCBI]
Taxonomic lineageEukaryota › Metazoa › Ecdysozoa › Nematoda › Chromadorea › Rhabditida › Rhabditoidea › Rhabditidae › Peloderinae › Caenorhabditis

Protein attributes

Sequence length571 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Isoform a plays a major role in programmed cell death (PCD, apoptosis). Egl-1 binds to and directly inhibits the activity of ced-9, releasing the cell death activator ced-4 from a ced-9/ced-4 containing protein complex and allowing ced-4 to activate the cell-killing caspase ced-3. Isoform b prevents PCD. Ref.1 Ref.3 Ref.4 Ref.5 Ref.6

Subunit structure

Interacts with ced-9. Ref.4 Ref.6

Subcellular location

Mitochondrion. Note: In non cell death induced cells. Ced-9 is required for mitochondrial localization. Perinuclear in cell death induced cells. Ref.4 Ref.5

Developmental stage

Most abundant during embryogenesis and is also detected at later stages during periods of extensive programmed cell death. Ref.1

Disruption phenotype

Mutants exhibit a block in almost all programmed cell deaths that normally occur during development. Ref.1

Sequence similarities

Contains 1 CARD domain.

Contains 1 NB-ARC domain.

Ontologies

Keywords
   Biological processApoptosis
   Cellular componentMitochondrion
   Coding sequence diversityAlternative splicing
   LigandATP-binding
Nucleotide-binding
   Technical term3D-structure
Complete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processembryo development ending in birth or egg hatching

Inferred from genetic interaction PubMed 21502138. Source: WormBase

embryonic morphogenesis

Inferred from genetic interaction PubMed 21285529. Source: WormBase

negative regulation of apoptotic process

Inferred from direct assay Ref.3. Source: UniProtKB

positive regulation of apoptotic process

Inferred from direct assay Ref.3. Source: UniProtKB

positive regulation of cysteine-type endopeptidase activity

Inferred from direct assay PubMed 9285582. Source: WormBase

positive regulation of protein processing

Inferred from direct assay PubMed 16208361. Source: WormBase

regulation of cell size

Inferred from genetic interaction PubMed 18635357. Source: WormBase

regulation of cysteine-type endopeptidase activity involved in apoptotic process

Inferred from direct assay PubMed 9742122. Source: WormBase

   Cellular_componentcytosol

Inferred from direct assay Ref.4. Source: UniProtKB

membrane

Inferred from direct assay Ref.4. Source: WormBase

mitochondrion

Inferred from direct assay Ref.5. Source: UniProtKB

nucleus

Inferred from direct assay Ref.5. Source: UniProtKB

perinuclear region of cytoplasm

Inferred from direct assay Ref.5PubMed 18042457Ref.4PubMed 9742122. Source: WormBase

   Molecular_functionADP binding

Inferred from electronic annotation. Source: InterPro

ATP binding

Inferred from direct assay PubMed 16208361PubMed 9285582. Source: WormBase

apoptotic protease activator activity

Inferred from direct assay PubMed 9285582. Source: WormBase

endopeptidase activator activity

Inferred from direct assay PubMed 16208361. Source: WormBase

Complete GO annotation...

Binary interactions

With

Entry

#Exp.

IntAct

Notes

BCL2L1Q078173EBI-494118,EBI-78035From a different organism.
ced-3P425739EBI-536271,EBI-494247
ced-9P4195818EBI-494118,EBI-494110

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform b (identifier: P30429-1)

Also known as: Long;

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.
Note: Minor transcript.
Isoform a (identifier: P30429-2)

Also known as: Short;

The sequence of this isoform differs from the canonical sequence as follows:
     212-234: ARVVSDTDDSHSITDFINRVLSR → K
Note: Major transcript.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 571571Cell death protein 4
PRO_0000089470

Regions

Domain1 – 9191CARD
Domain116 – 440325NB-ARC
Nucleotide binding159 – 1668ATP Potential

Natural variations

Alternative sequence212 – 23423ARVVS…RVLSR → K in isoform a.
VSP_013199

Secondary structure

1 ................................................................................. 571
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
Isoform b (Long) [UniParc].

Last modified March 29, 2005. Version 2.
Checksum: 6BE9893946B79E6C

FASTA57165,336
        10         20         30         40         50         60 
MLCEIECRAL STAHTRLIHD FEPRDALTYL EGKNIFTEDH SELISKMSTR LERIANFLRI 

        70         80         90        100        110        120 
YRRQASELGP LIDFFNYNNQ SHLADFLEDY IDFAINEPDL LRPVVIAPQF SRQMLDRKLL 

       130        140        150        160        170        180 
LGNVPKQMTC YIREYHVDRV IKKLDEMCDL DSFFLFLHGR AGSGKSVIAS QALSKSDQLI 

       190        200        210        220        230        240 
GINYDSIVWL KDSGTAPKST FDLFTDILLM LARVVSDTDD SHSITDFINR VLSRSEDDLL 

       250        260        270        280        290        300 
NFPSVEHVTS VVLKRMICNA LIDRPNTLFV FDDVVQEETI RWAQELRLRC LVTTRDVEIS 

       310        320        330        340        350        360 
NAASQTCEFI EVTSLEIDEC YDFLEAYGMP MPVGEKEEDV LNKTIELSSG NPATLMMFFK 

       370        380        390        400        410        420 
SCEPKTFEKM AQLNNKLESR GLVGVECITP YSYKSLAMAL QRCVEVLSDE DRSALAFAVV 

       430        440        450        460        470        480 
MPPGVDIPVK LWSCVIPVDI CSNEEEQLDD EVADRLKRLS KRGALLSGKR MPVLTFKIDH 

       490        500        510        520        530        540 
IIHMFLKHVV DAQTIANGIS ILEQRLLEIG NNNVSVPERH IPSHFQKFRR SSASEMYPKT 

       550        560        570 
TEETVIRPED FPKFMQLHQK FYDSLKNFAC C

« Hide

Isoform a (Short) [UniParc].

Checksum: DB2A7969BDA50AF8
Show »

FASTA54962,878

References

« Hide 'large scale' references
[1]"The Caenorhabditis elegans cell death gene ced-4 encodes a novel protein and is expressed during the period of extensive programmed cell death."
Yuan J., Horvitz H.R.
Development 116:309-320(1992) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] (ISOFORM A), FUNCTION, DEVELOPMENTAL STAGE, DISRUPTION PHENOTYPE.
[2]"Genome sequence of the nematode C. elegans: a platform for investigating biology."
The C. elegans sequencing consortium
Science 282:2012-2018(1998) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: Bristol N2.
[3]"An alternatively spliced C. elegans ced-4 RNA encodes a novel cell death inhibitor."
Shaham S., Horvitz H.R.
Cell 86:201-208(1996) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, ALTERNATIVE SPLICING.
[4]"Interaction and regulation of subcellular localization of CED-4 by CED-9."
Wu D., Wallen H.D., Nunez G.
Science 275:1126-1129(1997) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, SUBCELLULAR LOCATION, INTERACTION WITH CED-9.
[5]"Translocation of C. elegans CED-4 to nuclear membranes during programmed cell death."
Chen F., Hersh B.M., Conradt B., Zhou Z., Riemer D., Gruenbaum Y., Horvitz H.R.
Science 287:1485-1489(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, SUBCELLULAR LOCATION.
[6]"Structural, biochemical, and functional analyses of CED-9 recognition by the proapoptotic proteins EGL-1 and CED-4."
Yan N., Gu L., Kokel D., Chai J., Li W., Han A., Chen L., Xue D., Shi Y.
Mol. Cell 15:999-1006(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, INTERACTION WITH CED-9.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		X69016 Genomic DNA. Translation: CAA48781.1.
FO080789 Genomic DNA. Translation: CCD66781.1.
FO080789 Genomic DNA. Translation: CCD66782.1.
PIRS72566.
RefSeqNP_001021202.1. NM_001026031.2.
NP_001021203.1. NM_001026032.1.
UniGeneCel.10679.

3D structure databases

PDBe
RCSB PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
2A5YX-ray2.60B/C1-571[»]
3LQQX-ray3.53A/B1-571[»]
3LQRX-ray3.90A/B1-571[»]
ProteinModelPortalP30429.
SMRP30429. Positions 1-565.
ModBaseSearch...

Protein-protein interaction databases

DIPDIP-1016N.
IntActP30429. 5 interactions.
STRING6239.C35D10.9b.

Proteomic databases

PaxDbP30429.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaC35D10.9b; C35D10.9b; C35D10.9.
GeneID175643.
KEGGcel:CELE_C35D10.9.
UCSCC35D10.9b. c. elegans.

Organism-specific databases

CTD175643.
WormBaseC35D10.9a; CE01203; WBGene00000418; ced-4.
C35D10.9b; CE38154; WBGene00000418; ced-4.

Phylogenomic databases

eggNOGNOG248929.
HOGENOMHOG000111533.
InParanoidP30429.
OMALIDRPNT.

Family and domain databases

Gene3D1.10.533.10. 1 hit.
InterProIPR016854. Apop_reg_Ced-4.
IPR001315. CARD.
IPR011029. DEATH-like_dom.
IPR002182. NB-ARC.
[Graphical view]
PfamPF00619. CARD. 1 hit.
PF00931. NB-ARC. 1 hit.
[Graphical view]
PIRSFPIRSF027202. Apop_reg_Ced-4. 1 hit.
SMARTSM00114. CARD. 1 hit.
[Graphical view]
PROSITEPS50209. CARD. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceP30429.
NextBio889028.

Entry information

Entry nameCED4_CAEEL
AccessionPrimary (citable) accession number: P30429
Secondary accession number(s): Q5BHI5
Entry history
Integrated into UniProtKB/Swiss-Prot: April 1, 1993
Last sequence update: March 29, 2005
Last modified: May 1, 2013
This is version 110 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Relevant documents

Caenorhabditis elegans

Caenorhabditis elegans: entries, gene names and cross-references to WormBase

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents