Free for academic non-profit institutions. Other users need a Commercial license

Aliases for PDCD4 Gene

Aliases for PDCD4 Gene

  • Programmed Cell Death 4 2 3 5
  • Programmed Cell Death 4 (Neoplastic Transformation Inhibitor) 2 3
  • Neoplastic Transformation Inhibitor Protein 3 4
  • Nuclear Antigen H731 2 3
  • Protein 197/15a 3 4
  • H731 3 4
  • Programmed Cell Death Protein 4 3
  • Nuclear Antigen H731-Like 4

External Ids for PDCD4 Gene

Previous GeneCards Identifiers for PDCD4 Gene

  • GC10P111524
  • GC10P111865
  • GC10P112762
  • GC10P112296
  • GC10P112618
  • GC10P106260

Summaries for PDCD4 Gene

Entrez Gene Summary for PDCD4 Gene

  • This gene is a tumor suppressor and encodes a protein that binds to the eukaryotic translation initiation factor 4A1 and inhibits its function by preventing RNA binding. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2010]

CIViC summary for PDCD4 Gene

GeneCards Summary for PDCD4 Gene

PDCD4 (Programmed Cell Death 4) is a Protein Coding gene. Diseases associated with PDCD4 include Colorectal Cancer and Lung Cancer. Among its related pathways are MAPK Signaling: Mitogen Stimulation Pathway and mTOR signaling pathway (KEGG). Gene Ontology (GO) annotations related to this gene include RNA binding and binding.

UniProtKB/Swiss-Prot for PDCD4 Gene

  • Inhibits translation initiation and cap-dependent translation. May excert its function by hindering the interaction between EIF4A1 and EIF4G. Inhibits the helicase activity of EIF4A. Modulates the activation of JUN kinase. Down-regulates the expression of MAP4K1, thus inhibiting events important in driving invasion, namely, MAPK85 activation and consequent JUN-dependent transcription. May play a role in apoptosis. Tumor suppressor. Inhibits tumor promoter-induced neoplastic transformation. Binds RNA (By similarity).

Gene Wiki entry for PDCD4 Gene

Additional gene information for PDCD4 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PDCD4 Gene

Genomics for PDCD4 Gene

GeneHancer (GH) Regulatory Elements for PDCD4 Gene

Promoters and enhancers for PDCD4 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH10I110857 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 560.9 -5.6 -5625 18 FEZF1 IRF4 YY1 ZNF213 ZNF143 SP3 NFYC MEF2D ZNF610 GLIS1 PDCD4 SHOC2 SMC3 BBIP1 ADRA2A ENSG00000270589 DUSP5 ENSG00000232470 PDCD4-AS1 RNA5SP327
GH10I110818 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 20.6 -50.1 -50054 7.1 NEUROD1 SIN3A BMI1 SCRT2 ATF7 RUNX3 CEBPB SREBF1 MEF2D ZNF217 PDCD4 SMC3 PDCD4-AS1 ENSG00000232470 XPNPEP1 RBM20 ADRA2A RNA5SP327 GC10P110732
GH10I110802 Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 15.7 -68.1 -68055 3.3 HDGF FOXA2 SMAD1 ARID4B SIN3A FEZF1 ZNF2 GLIS2 ZNF213 ZNF143 PDCD4 ENSG00000232470 SMC3 RBM20 RNA5SP327 GC10P110732
GH10I110832 Enhancer 1.7 FANTOM5 Ensembl ENCODE dbSUPER 14.2 -31.5 -31479 15 HDGF PKNOX1 FOXA2 SMAD1 MLX ZFP64 ARID4B NEUROD1 FEZF1 YBX1 RBM20 PDCD4 PDCD4-AS1 ENSG00000232470 SHOC2 SMC3 RNA5SP327 GC10P110732
GH10I110783 Enhancer 0.8 Ensembl ENCODE dbSUPER 16.9 -87.9 -87869 1.4 ZNF316 EGR1 PDCD4 ENSG00000232470 RNA5SP327 GC10P110732 RBM20
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around PDCD4 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the PDCD4 gene promoter:

Genomic Locations for PDCD4 Gene

Genomic Locations for PDCD4 Gene
chr10:110,871,795-110,900,006
(GRCh38/hg38)
Size:
28,212 bases
Orientation:
Plus strand
chr10:112,631,553-112,659,764
(GRCh37/hg19)

Genomic View for PDCD4 Gene

Genes around PDCD4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PDCD4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PDCD4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PDCD4 Gene

Proteins for PDCD4 Gene

  • Protein details for PDCD4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q53EL6-PDCD4_HUMAN
    Recommended name:
    Programmed cell death protein 4
    Protein Accession:
    Q53EL6
    Secondary Accessions:
    • B2RCV4
    • B5ME91
    • O15501
    • Q5VZS6
    • Q6PJI5
    • Q8TAR5
    • Q99834

    Protein attributes for PDCD4 Gene

    Size:
    469 amino acids
    Molecular mass:
    51735 Da
    Quaternary structure:
    • Interacts (via MI domains) with EIF4A2 (By similarity). Interacts (via MI domains) with EIF4A1 (via N-terminal domain). Heterotrimer with EIF4A1; one molecule of PDCD4 binds two molecules of EIF4A1. Interacts with EIF4G1. May form a complex with EIF4A1 and EIF4G1. The interaction between PDCD4 and EIF4A1 interferes with the interaction between EIF4A1 and EIF4G. When phosphorylated, interacts with BTRC and FBXW11.
    SequenceCaution:
    • Sequence=AAB42218.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=AAH15036.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for PDCD4 Gene

    Alternative splice isoforms for PDCD4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PDCD4 Gene

Post-translational modifications for PDCD4 Gene

  • Phosphorylated at Ser-67 by RPS6KB1 in response to mitogens; phosphorylation promotes proteasomal degradation of PDCD4.
  • Polyubiquitinated, leading to its proteasomal degradation. Rapidly degraded in response to mitogens. Phosphorylation of the phosphodegron promotes interaction with BTRC and proteasomal degradation.

Other Protein References for PDCD4 Gene

No data available for DME Specific Peptides for PDCD4 Gene

Domains & Families for PDCD4 Gene

Gene Families for PDCD4 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for PDCD4 Gene

Suggested Antigen Peptide Sequences for PDCD4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q53EL6

UniProtKB/Swiss-Prot:

PDCD4_HUMAN :
  • Binds EIF4A1 via both MI domains.
  • Belongs to the PDCD4 family.
Domain:
  • Binds EIF4A1 via both MI domains.
Family:
  • Belongs to the PDCD4 family.
genes like me logo Genes that share domains with PDCD4: view

Function for PDCD4 Gene

Molecular function for PDCD4 Gene

GENATLAS Biochemistry:
programmed cell death (apoptosis),inhibited by topoisomerase inhibitors (TIS)
UniProtKB/Swiss-Prot Function:
Inhibits translation initiation and cap-dependent translation. May excert its function by hindering the interaction between EIF4A1 and EIF4G. Inhibits the helicase activity of EIF4A. Modulates the activation of JUN kinase. Down-regulates the expression of MAP4K1, thus inhibiting events important in driving invasion, namely, MAPK85 activation and consequent JUN-dependent transcription. May play a role in apoptosis. Tumor suppressor. Inhibits tumor promoter-induced neoplastic transformation. Binds RNA (By similarity).
UniProtKB/Swiss-Prot Induction:
IL2/interleukin-2 stimulation inhibits expression, while IL12/interleukin-12 increases expression.

Phenotypes From GWAS Catalog for PDCD4 Gene

Gene Ontology (GO) - Molecular Function for PDCD4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IEA --
GO:0005515 protein binding IPI 12054647
genes like me logo Genes that share ontologies with PDCD4: view
genes like me logo Genes that share phenotypes with PDCD4: view

Animal Models for PDCD4 Gene

MGI Knock Outs for PDCD4:

Animal Model Products

miRNA for PDCD4 Gene

miRTarBase miRNAs that target PDCD4

Clone Products

  • Addgene plasmids for PDCD4

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for PDCD4 Gene

Localization for PDCD4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PDCD4 Gene

Nucleus. Cytoplasm. Note=Shuttles between the nucleus and cytoplasm (By similarity). Predominantly nuclear under normal growth conditions, and when phosphorylated at Ser-457 (PubMed:16357133). {ECO:0000269 PubMed:16357133}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for PDCD4 gene
Compartment Confidence
nucleus 5
cytosol 5
extracellular 2

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for PDCD4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus ISS,IMP --
GO:0005737 cytoplasm IMP 16357133
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with PDCD4: view

Pathways & Interactions for PDCD4 Gene

genes like me logo Genes that share pathways with PDCD4: view

Pathways by source for PDCD4 Gene

1 GeneTex pathway for PDCD4 Gene
2 Cell Signaling Technology pathways for PDCD4 Gene
2 BioSystems pathways for PDCD4 Gene

SIGNOR curated interactions for PDCD4 Gene

Is inactivated by:

Gene Ontology (GO) - Biological Process for PDCD4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006915 apoptotic process NAS,TAS 12054647
GO:0007569 cell aging IDA 12054647
GO:0030509 BMP signaling pathway IDA 18548003
GO:0034393 positive regulation of smooth muscle cell apoptotic process IEA --
GO:0035722 interleukin-12-mediated signaling pathway TAS --
genes like me logo Genes that share ontologies with PDCD4: view

Drugs & Compounds for PDCD4 Gene

No Compound Related Data Available

Transcripts for PDCD4 Gene

Unigene Clusters for PDCD4 Gene

Programmed cell death 4 (neoplastic transformation inhibitor):
Representative Sequences:

Clone Products

  • Addgene plasmids for PDCD4

Alternative Splicing Database (ASD) splice patterns (SP) for PDCD4 Gene

ExUns: 1 ^ 2 ^ 3a · 3b · 3c · 3d ^ 4a · 4b ^ 5 ^ 6 ^ 7a · 7b · 7c · 7d ^ 8 ^ 9a · 9b · 9c ^ 10 ^ 11a · 11b · 11c ^ 12a · 12b · 12c · 12d ^
SP1: - - - - -
SP2: - - - -
SP3: - - - - - - -
SP4: - - - - - - - -
SP5: - - - - - -
SP6: - -
SP7: - - - - - -
SP8: - - -
SP9: -
SP10: - - - - - - -
SP11: - -
SP12:
SP13:
SP14: - - - -
SP15:
SP16:

ExUns: 13a · 13b ^ 14a · 14b · 14c ^ 15 ^ 16 ^ 17a · 17b · 17c ^ 18
SP1: - - -
SP2: - - - - -
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:
SP13: -
SP14:
SP15:
SP16:

Relevant External Links for PDCD4 Gene

GeneLoc Exon Structure for
PDCD4
ECgene alternative splicing isoforms for
PDCD4

Expression for PDCD4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PDCD4 Gene

mRNA differential expression in normal tissues according to GTEx for PDCD4 Gene

This gene is overexpressed in Pancreas (x8.8).

Protein differential expression in normal tissues from HIPED for PDCD4 Gene

This gene is overexpressed in Lymph node (8.1), Tlymphocyte (7.1), and Peripheral blood mononuclear cells (6.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for PDCD4 Gene



Protein tissue co-expression partners for PDCD4 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of PDCD4 Gene:

PDCD4

SOURCE GeneReport for Unigene cluster for PDCD4 Gene:

Hs.711490

mRNA Expression by UniProt/SwissProt for PDCD4 Gene:

Q53EL6-PDCD4_HUMAN
Tissue specificity: Up-regulated in proliferative cells. Highly expressed in epithelial cells of the mammary gland. Reduced expression in lung cancer and colon carcinoma.

Evidence on tissue expression from TISSUES for PDCD4 Gene

  • Nervous system(4.8)
  • Blood(4.6)
  • Liver(4.5)
  • Skin(4.5)
  • Spleen(4.5)
  • Intestine(3.2)
  • Lung(2.9)
  • Heart(2.8)
  • Pancreas(2.8)
  • Lymph node(2.6)
  • Muscle(2.5)
  • Thyroid gland(2.2)
  • Stomach(2.1)
  • Bone marrow(2)
genes like me logo Genes that share expression patterns with PDCD4: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and Phenotype-based relationships between genes and organs from Gene ORGANizer for PDCD4 Gene

Orthologs for PDCD4 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for PDCD4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PDCD4 33 34
  • 99.64 (n)
dog
(Canis familiaris)
Mammalia PDCD4 33 34
  • 95.17 (n)
oppossum
(Monodelphis domestica)
Mammalia PDCD4 34
  • 95 (a)
OneToOne
cow
(Bos Taurus)
Mammalia PDCD4 33 34
  • 93.89 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 93 (a)
OneToMany
-- 34
  • 92 (a)
OneToMany
mouse
(Mus musculus)
Mammalia Pdcd4 33 16 34
  • 89.55 (n)
rat
(Rattus norvegicus)
Mammalia Pdcd4 33
  • 88.7 (n)
chicken
(Gallus gallus)
Aves PDCD4 33 34
  • 80.23 (n)
lizard
(Anolis carolinensis)
Reptilia PDCD4 34
  • 84 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia pdcd4 33
  • 70.97 (n)
Str.6786 33
African clawed frog
(Xenopus laevis)
Amphibia pdcd4-prov 33
zebrafish
(Danio rerio)
Actinopterygii pdcd4b 33 34
  • 66.31 (n)
pdcd4 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.1132 33
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP000378 33
  • 49.82 (n)
fruit fly
(Drosophila melanogaster)
Insecta Pdcd4 33 34
  • 47.88 (n)
CG10990 35
  • 39 (a)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT4G24800 33
  • 46.25 (n)
rice
(Oryza sativa)
Liliopsida Os08g0120500 33
  • 48.25 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.2910 34
  • 40 (a)
OneToOne
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.4897 33
Species where no ortholog for PDCD4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for PDCD4 Gene

ENSEMBL:
Gene Tree for PDCD4 (if available)
TreeFam:
Gene Tree for PDCD4 (if available)

Paralogs for PDCD4 Gene

No data available for Paralogs for PDCD4 Gene

Variants for PDCD4 Gene

Sequence variations from dbSNP and Humsavar for PDCD4 Gene

SNP ID Clin Chr 10 pos Variation AA Info Type
rs515726134 pathogenic, Bardet-Biedl syndrome, Bardet-Biedl syndrome 18 110,900,466(+) A/C downstream_transcript_variant
VAR_036375 A breast cancer sample p.Gly120Arg
rs1000017355 -- 110,871,845(+) C/G 5_prime_UTR_variant
rs1000056963 -- 110,873,634(+) C/T intron_variant
rs1000072080 -- 110,871,624(+) C/G upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for PDCD4 Gene

Variant ID Type Subtype PubMed ID
nsv1035602 CNV loss 25217958
nsv1069515 CNV deletion 25765185
nsv7211 OTHER inversion 18451855
nsv7548 CNV insertion 18451855
nsv831985 CNV gain+loss 17160897
nsv951847 CNV duplication 24416366

Variation tolerance for PDCD4 Gene

Residual Variation Intolerance Score: 13.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.25; 24.97% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PDCD4 Gene

Human Gene Mutation Database (HGMD)
PDCD4
SNPedia medical, phenotypic, and genealogical associations of SNPs for
PDCD4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PDCD4 Gene

Disorders for PDCD4 Gene

MalaCards: The human disease database

(2) MalaCards diseases for PDCD4 Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
colorectal cancer
  • crc
lung cancer
  • lung cancer, susceptibility to
- elite association - COSMIC cancer census association via MalaCards
Search PDCD4 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for PDCD4

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with PDCD4: view

No data available for UniProtKB/Swiss-Prot and Genatlas for PDCD4 Gene

Publications for PDCD4 Gene

  1. Structural basis for translational inhibition by the tumour suppressor Pdcd4. (PMID: 19153607) Loh PG … Song H (The EMBO journal 2009) 3 4 22 58
  2. Tumorigenesis suppressor Pdcd4 down-regulates mitogen-activated protein kinase kinase kinase kinase 1 expression to suppress colon carcinoma cell invasion. (PMID: 16449643) Yang HS … Colburn NH (Molecular and cellular biology 2006) 3 4 22 58
  3. Akt phosphorylates and regulates Pdcd4 tumor suppressor protein. (PMID: 16357133) Palamarchuk A … Pekarsky Y (Cancer research 2005) 3 4 22 58
  4. Novel human PDCD4 (H731) gene expressed in proliferative cells is expressed in the small duct epithelial cells of the breast as revealed by an anti-H731 antibody. (PMID: 10632927) Yoshinaga H … Masaki Z (Pathology international 1999) 3 4 22 58
  5. Differential transcriptional regulation of CD161 and a novel gene, 197/15a, by IL-2, IL-15, and IL-12 in NK and T cells. (PMID: 9759869) Azzoni L … Perussia B (Journal of immunology (Baltimore, Md. : 1950) 1998) 2 3 4 58

Products for PDCD4 Gene

Sources for PDCD4 Gene

Content
Loading form....