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Aliases for PDCD5 Gene

Aliases for PDCD5 Gene

  • Programmed Cell Death 5 2 3 5
  • TF-1 Cell Apoptosis-Related Protein 19 3 4
  • TF1 Cell Apoptosis-Related Gene 19 2 3
  • Programmed Cell Death Protein 5 3 4
  • TFAR19 Novel Apoptosis-Related 2 3
  • TFAR19 3 4
  • Protein TFAR19 4

External Ids for PDCD5 Gene

Previous GeneCards Identifiers for PDCD5 Gene

  • GC19P033689
  • GC19P033521
  • GC19P037749
  • GC19P037763
  • GC19P033072
  • GC19P029575

Summaries for PDCD5 Gene

Entrez Gene Summary for PDCD5 Gene

  • This gene encodes a protein that is upregulated during apoptosis where it translocates rapidly from the cytoplasm to the nucleus. The encoded protein may be an important regulator of K(lysine) acetyltransferase 5 (a protein involved in transcription, DNA damage response and cell cycle control) by inhibiting its proteasome-dependent degradation. Pseudogenes have been identified on chromosomes 5 and 12 [provided by RefSeq, Dec 2010]

GeneCards Summary for PDCD5 Gene

PDCD5 (Programmed Cell Death 5) is a Protein Coding gene. Diseases associated with PDCD5 include Childhood Oligodendroglioma. Gene Ontology (GO) annotations related to this gene include heparin binding and acetyltransferase activator activity.

UniProtKB/Swiss-Prot for PDCD5 Gene

Gene Wiki entry for PDCD5 Gene

Additional gene information for PDCD5 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PDCD5 Gene

Genomics for PDCD5 Gene

GeneHancer (GH) Regulatory Elements for PDCD5 Gene

Promoters and enhancers for PDCD5 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
GH19J032580 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 641.2 +0.2 166 2.7 SP1 ZFX ELF3 NKRF POLR2A MLLT1 ZNF121 ZNF687 YY1 SP7 PDCD5 GPATCH1 CEP89 ANKRD27 SNORA68B ZNF507 GC19P032871
GH19J033370 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 28.7 +793.5 793529 8.7 ZNF473 SP1 ELF3 ZFX MNT NKRF POLR2A MLLT1 ZNF121 CEBPG CEBPG GPATCH1 LSM14A CEP89 KIAA0355 FAAP24 PDCD5 ENSG00000267219 WDR88 ANKRD27
GH19J033296 Promoter/Enhancer 2 FANTOM5 Ensembl ENCODE dbSUPER 26.9 +720.2 720236 10.6 ZNF473 SP1 ZFX ELF3 CTCF MNT CBFA2T2 POLR2A ZNF121 ZNF687 CEBPA-DT CEBPA GC19M033302 ENSG00000267727 ENSG00000267580 GPATCH1 ZNF507 CEP89 LSM14A KIAA0355
GH19J033388 Promoter/Enhancer 1.7 Ensembl ENCODE dbSUPER 31.7 +810.8 810815 7.8 ZNF473 ELF3 MNT ZNF121 CEBPG RERE NFIB AHR TFE3 SP1 GPATCH1 CEP89 LSM14A PDCD5 ENSG00000267219 CHST8 WDR88 KIAA0355 CEBPG PEPD
GH19J033175 Promoter/Enhancer 1.9 FANTOM5 Ensembl ENCODE 26.5 +595.8 595831 3.2 ZNF652 SP1 ZFX ELF3 MNT NKRF POLR2A GTF2F1 CSDE1 ZNF687 LRP3 GC19M033175 TRT-AGT1-3 ENSG00000267054 GPATCH1 CEP89 ZNF507 LSM14A WDR88 PDCD5
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around PDCD5 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the PDCD5 gene promoter:
  • AREB6
  • c-Ets-1
  • E47
  • Elk-1
  • GCNF
  • GCNF-1
  • LCR-F1
  • NF-1
  • p53
  • Tal-1

Genomic Locations for PDCD5 Gene

Genomic Locations for PDCD5 Gene
chr19:32,581,170-32,587,453
(GRCh38/hg38)
Size:
6,284 bases
Orientation:
Plus strand
chr19:33,071,974-33,078,358
(GRCh37/hg19)
Size:
6,385 bases
Orientation:
Plus strand

Genomic View for PDCD5 Gene

Genes around PDCD5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PDCD5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PDCD5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PDCD5 Gene

Proteins for PDCD5 Gene

  • Protein details for PDCD5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O14737-PDCD5_HUMAN
    Recommended name:
    Programmed cell death protein 5
    Protein Accession:
    O14737
    Secondary Accessions:
    • B4DE64
    • Q53YC9
    • Q6IB70

    Protein attributes for PDCD5 Gene

    Size:
    125 amino acids
    Molecular mass:
    14285 Da
    Quaternary structure:
    No Data Available

    Three dimensional structures from OCA and Proteopedia for PDCD5 Gene

    Alternative splice isoforms for PDCD5 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PDCD5 Gene

Post-translational modifications for PDCD5 Gene

  • Ubiquitination at posLast=3333, posLast=6868, and posLast=2020
  • Modification sites at PhosphoSitePlus

Other Protein References for PDCD5 Gene

No data available for DME Specific Peptides for PDCD5 Gene

Domains & Families for PDCD5 Gene

Gene Families for PDCD5 Gene

Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for PDCD5 Gene

Suggested Antigen Peptide Sequences for PDCD5 Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ52456, moderately similar to Programmed cell death protein 5 (B4DE64_HUMAN)
  • TF-1 cell apoptosis-related protein 19 (PDCD5_HUMAN)

Graphical View of Domain Structure for InterPro Entry

O14737

UniProtKB/Swiss-Prot:

PDCD5_HUMAN :
  • Belongs to the PDCD5 family.
Family:
  • Belongs to the PDCD5 family.
genes like me logo Genes that share domains with PDCD5: view

Function for PDCD5 Gene

Molecular function for PDCD5 Gene

UniProtKB/Swiss-Prot Function:
May function in the process of apoptosis.
UniProtKB/Swiss-Prot Induction:
Activated in cells undergoing apoptosis.
GENATLAS Biochemistry:
programmed cell death 5,ubiquitously expressed in tumor cells and enhancing apoptosis triggered by growth factor or serum deprivatio,putatively playing a general role in the apoptotic process

Phenotypes From GWAS Catalog for PDCD5 Gene

Gene Ontology (GO) - Molecular Function for PDCD5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0005515 protein binding IPI 24012345
GO:0008201 heparin binding IDA 17165023
GO:0010698 acetyltransferase activator activity IDA 24012345
GO:0048487 beta-tubulin binding IPI 24375412
genes like me logo Genes that share ontologies with PDCD5: view
genes like me logo Genes that share phenotypes with PDCD5: view

Animal Model Products

CRISPR Products

miRNA for PDCD5 Gene

miRTarBase miRNAs that target PDCD5

Clone Products

  • Applied Biological Materials (abm): Clones for PDCD5 - Now 50% OFF >
  • * PDCD5 as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
  • * PDCD5 tags and reporters available: His, HA, Myc, Flag, GFP, RFP, Luciferase - Browse All

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PDCD5 Gene

Localization for PDCD5 Gene

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 PDCD5 gene
Compartment Confidence
nucleus 5
cytosol 4
mitochondrion 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Nucleus (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for PDCD5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA,IBA 24012345
GO:0005737 cytoplasm HDA 16791210
GO:0005829 cytosol IBA 21873635
GO:0070062 extracellular exosome HDA 20458337
genes like me logo Genes that share ontologies with PDCD5: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for PDCD5 Gene

Pathways & Interactions for PDCD5 Gene

PathCards logo

SuperPathways for PDCD5 Gene

No Data Available

SIGNOR curated interactions for PDCD5 Gene

Is activated by:

Gene Ontology (GO) - Biological Process for PDCD5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006915 apoptotic process IEA --
GO:0008285 negative regulation of cell proliferation IMP 16374546
GO:0010628 positive regulation of gene expression IDA 24012345
GO:0043065 positive regulation of apoptotic process IMP 9920759
GO:0043280 positive regulation of cysteine-type endopeptidase activity involved in apoptotic process IMP 16374546
genes like me logo Genes that share ontologies with PDCD5: view

No data available for Pathways by source for PDCD5 Gene

Drugs & Compounds for PDCD5 Gene

No Compound Related Data Available

Transcripts for PDCD5 Gene

mRNA/cDNA for PDCD5 Gene

Unigene Clusters for PDCD5 Gene

Programmed cell death 5:
Representative Sequences:

CRISPR Products

Clone Products

  • Applied Biological Materials (abm): Clones for PDCD5 - Now 50% OFF >
  • * PDCD5 as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
  • * PDCD5 tags and reporters available: His, HA, Myc, Flag, GFP, RFP, Luciferase - Browse All

Alternative Splicing Database (ASD) splice patterns (SP) for PDCD5 Gene

No ASD Table

Relevant External Links for PDCD5 Gene

GeneLoc Exon Structure for
PDCD5
ECgene alternative splicing isoforms for
PDCD5

Expression for PDCD5 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PDCD5 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for PDCD5 Gene



Protein tissue co-expression partners for PDCD5 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of PDCD5 Gene:

PDCD5

SOURCE GeneReport for Unigene cluster for PDCD5 Gene:

Hs.443831

mRNA Expression by UniProt/SwissProt for PDCD5 Gene:

O14737-PDCD5_HUMAN
Tissue specificity: Widely expressed. Highest levels in heart, testis, kidney, pituitary gland, adrenal gland and placenta.

Evidence on tissue expression from TISSUES for PDCD5 Gene

  • Lung(4.4)
  • Blood(4.3)
  • Liver(4.3)
  • Nervous system(4.3)
  • Bone marrow(2)
genes like me logo Genes that share expression patterns with PDCD5: view

No data available for mRNA differential expression in normal tissues , Protein differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for PDCD5 Gene

Orthologs for PDCD5 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for PDCD5 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PDCD5 35 34
  • 99.47 (n)
OneToOne
cow
(Bos Taurus)
Mammalia PDCD5 35 34
  • 94.67 (n)
OneToOne
dog
(Canis familiaris)
Mammalia PDCD5 35 34
  • 94.5 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Pdcd5 35
  • 94 (a)
OneToOne
Gm3837 34
  • 92 (n)
Pdcd5-ps 17
rat
(Rattus norvegicus)
Mammalia Pdcd5 34
  • 90.93 (n)
oppossum
(Monodelphis domestica)
Mammalia PDCD5 35
  • 90 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia PDCD5 35
  • 82 (a)
OneToOne
chicken
(Gallus gallus)
Aves PDCD5 35 34
  • 83.2 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia PDCD5 35
  • 78 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia pdcd5 34
  • 75.81 (n)
zebrafish
(Danio rerio)
Actinopterygii pdcd5 35 34
  • 71.77 (n)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta PDCD-5 35 34
  • 52.8 (n)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP005432 34
  • 51.09 (n)
worm
(Caenorhabditis elegans)
Secernentea D2005.3 35 34
  • 55.88 (n)
OneToOne
thale cress
(Arabidopsis thaliana)
eudicotyledons AT1G29850 34
  • 53.61 (n)
rice
(Oryza sativa)
Liliopsida Os05g0547850 34
  • 52.07 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 59 (a)
OneToOne
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPAC23C4.09c 34
  • 51.26 (n)
Species where no ortholog for PDCD5 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)

Evolution for PDCD5 Gene

ENSEMBL:
Gene Tree for PDCD5 (if available)
TreeFam:
Gene Tree for PDCD5 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for PDCD5: view image

Paralogs for PDCD5 Gene

Pseudogenes.org Pseudogenes for PDCD5 Gene

genes like me logo Genes that share paralogs with PDCD5: view

No data available for Paralogs for PDCD5 Gene

Variants for PDCD5 Gene

Sequence variations from dbSNP and Humsavar for PDCD5 Gene

SNP ID Clin Chr 19 pos Variation AA Info Type
rs1000053061 -- 32,583,687(+) T/G intron_variant
rs1000357277 -- 32,581,013(+) C/A/T upstream_transcript_variant
rs1000396744 -- 32,583,429(+) A/G intron_variant
rs1000704140 -- 32,581,526(+) G/A intron_variant
rs1000767747 -- 32,583,097(+) G/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for PDCD5 Gene

Variant ID Type Subtype PubMed ID
nsv519794 CNV gain 19592680

Variation tolerance for PDCD5 Gene

Residual Variation Intolerance Score: 48% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.29; 25.66% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PDCD5 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PDCD5
Human Gene Mutation Database (HGMD)
PDCD5

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PDCD5 Gene

Disorders for PDCD5 Gene

MalaCards: The human disease database

(1) MalaCards diseases for PDCD5 Gene - From: HGMD and DISEASES

Disorder Aliases PubMed IDs
childhood oligodendroglioma
  • pediatric oligodendroglioma
- elite association - COSMIC cancer census association via MalaCards
Search PDCD5 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for PDCD5

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 PDCD5: view

No data available for UniProtKB/Swiss-Prot and Genatlas for PDCD5 Gene

Publications for PDCD5 Gene

  1. TFAR19, a novel apoptosis-related gene cloned from human leukemia cell line TF-1, could enhance apoptosis of some tumor cells induced by growth factor withdrawal. (PMID: 9920759) Liu H … Ma D (Biochemical and biophysical research communications 1999) 2 3 4 23 58
  2. A Large-scale genetic association study of esophageal adenocarcinoma risk. (PMID: 20453000) Liu CY … Christiani DC (Carcinogenesis 2010) 3 45 58
  3. Structure-function correlation of human programmed cell death 5 protein. (PMID: 19358820) Yao H … Wang J (Archives of biochemistry and biophysics 2009) 3 4 58
  4. A gene-based risk score for lung cancer susceptibility in smokers and ex-smokers. (PMID: 19789190) Young RP … Gamble GD (Postgraduate medical journal 2009) 3 45 58
  5. Association of the PDCD5 locus with lung cancer risk and prognosis in smokers. (PMID: 16549820) Spinola M … Braun A (Journal of clinical oncology : official journal of the American Society of Clinical Oncology 2006) 3 45 58

Products for PDCD5 Gene

Sources for PDCD5 Gene

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