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Aliases for PDCD2 Gene

Aliases for PDCD2 Gene

  • Programmed Cell Death 2 2 3 5
  • Zinc Finger MYND Domain-Containing Protein 7 3 4
  • Zinc Finger Protein Rp-8 3 4
  • ZMYND7 3 4
  • RP8 3 4

External Ids for PDCD2 Gene

Previous GeneCards Identifiers for PDCD2 Gene

  • GC06M170079
  • GC06M170500
  • GC06M170742
  • GC06M170804
  • GC06M168391
  • GC06M170884
  • GC06M170579
  • GC06M170582

Summaries for PDCD2 Gene

Entrez Gene Summary for PDCD2 Gene

  • This gene encodes a nuclear protein expressed in a variety of tissues. Expression of this gene has been shown to be repressed by B-cell CLL/lymphoma 6 (BCL6), a transcriptional repressor required for lymph node germinal center development, suggesting that BCL6 regulates apoptosis by its effects on this protein. Alternative splicing results in multiple transcript variants and pseudogenes have been identified on chromosomes 9 and 12. [provided by RefSeq, Dec 2010]

GeneCards Summary for PDCD2 Gene

PDCD2 (Programmed Cell Death 2) is a Protein Coding gene. Diseases associated with PDCD2 include chronic fatigue syndrome. Among its related pathways are TNF-alpha/NF-kB Signaling Pathway. GO annotations related to this gene include enzyme binding. An important paralog of this gene is ENSG00000266953.

UniProtKB/Swiss-Prot for PDCD2 Gene

  • May be a DNA-binding protein with a regulatory function. May play an important role in cell death and/or in regulation of cell proliferation.

Gene Wiki entry for PDCD2 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PDCD2 Gene

Genomics for PDCD2 Gene

Regulatory Elements for PDCD2 Gene

Promoters for PDCD2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around PDCD2 on UCSC Golden Path with GeneCards custom track

Genomic Location for PDCD2 Gene

Chromosome:
6
Start:
170,575,295 bp from pter
End:
170,584,774 bp from pter
Size:
9,480 bases
Orientation:
Minus strand

Genomic View for PDCD2 Gene

Genes around PDCD2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PDCD2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PDCD2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PDCD2 Gene

Proteins for PDCD2 Gene

  • Protein details for PDCD2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q16342-PDCD2_HUMAN
    Recommended name:
    Programmed cell death protein 2
    Protein Accession:
    Q16342
    Secondary Accessions:
    • E9PCU7
    • F5GYS7
    • Q58HM9
    • Q58HN0
    • Q9UH12

    Protein attributes for PDCD2 Gene

    Size:
    344 amino acids
    Molecular mass:
    38592 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for PDCD2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PDCD2 Gene

Proteomics data for PDCD2 Gene at MOPED

Post-translational modifications for PDCD2 Gene

Antibody Products

No data available for DME Specific Peptides for PDCD2 Gene

Domains & Families for PDCD2 Gene

Gene Families for PDCD2 Gene

Protein Domains for PDCD2 Gene

Graphical View of Domain Structure for InterPro Entry

Q16342

UniProtKB/Swiss-Prot:

PDCD2_HUMAN :
  • Contains 1 MYND-type zinc finger.
Similarity:
  • Contains 1 MYND-type zinc finger.
genes like me logo Genes that share domains with PDCD2: view

Function for PDCD2 Gene

Molecular function for PDCD2 Gene

GENATLAS Biochemistry:
programmed cell death (apoptosis) 2,rat RP8 homolog
UniProtKB/Swiss-Prot Function:
May be a DNA-binding protein with a regulatory function. May play an important role in cell death and/or in regulation of cell proliferation.

Gene Ontology (GO) - Molecular Function for PDCD2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with PDCD2: view
genes like me logo Genes that share phenotypes with PDCD2: view

Animal Models for PDCD2 Gene

MGI Knock Outs for PDCD2:

miRNA for PDCD2 Gene

miRTarBase miRNAs that target PDCD2

Inhibitory RNA Products

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for PDCD2 Gene

Localization for PDCD2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PDCD2 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for PDCD2 Gene COMPARTMENTS Subcellular localization image for PDCD2 gene
Compartment Confidence
extracellular 5
nucleus 4
cytosol 2
plasma membrane 2

Gene Ontology (GO) - Cellular Components for PDCD2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IEA --
genes like me logo Genes that share ontologies with PDCD2: view

Pathways & Interactions for PDCD2 Gene

genes like me logo Genes that share pathways with PDCD2: view

Pathways by source for PDCD2 Gene

1 BioSystems pathway for PDCD2 Gene

Gene Ontology (GO) - Biological Process for PDCD2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006915 apoptotic process TAS 7606924
GO:0012501 programmed cell death IEA --
GO:1902035 positive regulation of hematopoietic stem cell proliferation IMP 22922207
genes like me logo Genes that share ontologies with PDCD2: view

No data available for SIGNOR curated interactions for PDCD2 Gene

Drugs & Compounds for PDCD2 Gene

(1) Drugs for PDCD2 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
genes like me logo Genes that share compounds with PDCD2: view

Transcripts for PDCD2 Gene

Unigene Clusters for PDCD2 Gene

Programmed cell death 2:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for PDCD2 Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b · 2c ^ 3a · 3b · 3c ^ 4a · 4b · 4c · 4d ^ 5a · 5b ^ 6 ^ 7a · 7b · 7c · 7d ^ 8 ^ 9a · 9b · 9c
SP1: - - - - - - - -
SP2: - - - - - - -
SP3: - - - - -
SP4: - - - -
SP5: - - - -
SP6: - - - - - - - -
SP7: - -
SP8: - -
SP9: - - - - - - -
SP10: -

Relevant External Links for PDCD2 Gene

GeneLoc Exon Structure for
PDCD2
ECgene alternative splicing isoforms for
PDCD2

Expression for PDCD2 Gene

mRNA expression in normal human tissues for PDCD2 Gene

Protein differential expression in normal tissues from HIPED for PDCD2 Gene

This gene is overexpressed in Pancreas (38.6), Fetal Brain (8.3), and Fetal ovary (8.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for PDCD2 Gene



SOURCE GeneReport for Unigene cluster for PDCD2 Gene Hs.367900

mRNA Expression by UniProt/SwissProt for PDCD2 Gene

Q16342-PDCD2_HUMAN
Tissue specificity: Ubiquitous.
genes like me logo Genes that share expression patterns with PDCD2: view

Protein tissue co-expression partners for PDCD2 Gene

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for PDCD2 Gene

Orthologs for PDCD2 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for PDCD2 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia PDCD2 35
  • 86.3 (n)
  • 83.67 (a)
PDCD2 36
  • 83 (a)
OneToOne
dog
(Canis familiaris)
Mammalia PDCD2 35
  • 86.59 (n)
  • 88.05 (a)
PDCD2 36
  • 88 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Pdcd2 35
  • 83.67 (n)
  • 85.13 (a)
Pdcd2 16
Pdcd2 36
  • 85 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia PDCD2 35
  • 98.03 (n)
  • 97.94 (a)
PDCD2 36
  • 98 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Pdcd2 35
  • 82.22 (n)
  • 83.38 (a)
oppossum
(Monodelphis domestica)
Mammalia PDCD2 36
  • 71 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia PDCD2 36
  • 65 (a)
OneToOne
chicken
(Gallus gallus)
Aves PDCD2 35
  • 65.76 (n)
  • 62.65 (a)
PDCD2 36
  • 50 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia PDCD2 36
  • 47 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia pdcd2 35
  • 61.79 (n)
  • 60.3 (a)
African clawed frog
(Xenopus laevis)
Amphibia pdcd2-prov 35
zebrafish
(Danio rerio)
Actinopterygii pdcd2 35
  • 57.11 (n)
  • 52.74 (a)
zgc63685 35
pdcd2 36
  • 48 (a)
OneToOne
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.1807 35
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP005582 35
  • 52.68 (n)
  • 47.32 (a)
fruit fly
(Drosophila melanogaster)
Insecta Zfrp8 35
  • 53.18 (n)
  • 44.59 (a)
Zfrp8 36
  • 38 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea pdcd-2 35
  • 49.7 (n)
  • 42.68 (a)
pdcd-2 36
  • 33 (a)
OneToOne
thale cress
(Arabidopsis thaliana)
eudicotyledons AT4G02220 35
  • 46.4 (n)
  • 40.43 (a)
rice
(Oryza sativa)
Liliopsida Os03g0300200 35
  • 49.79 (n)
  • 39.38 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.6606 36
  • 43 (a)
OneToOne
Species with no ortholog for PDCD2:
  • 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)

Evolution for PDCD2 Gene

ENSEMBL:
Gene Tree for PDCD2 (if available)
TreeFam:
Gene Tree for PDCD2 (if available)

Paralogs for PDCD2 Gene

Paralogs for PDCD2 Gene

Pseudogenes.org Pseudogenes for PDCD2 Gene

genes like me logo Genes that share paralogs with PDCD2: view

Variants for PDCD2 Gene

Sequence variations from dbSNP and Humsavar for PDCD2 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs8770 -- 170,577,443(-) TTGAC(A/G)GATTG nc-transcript-variant, utr-variant-3-prime
rs734249 -- 170,584,930(-) GTTTG(A/C)GGGAG upstream-variant-2KB
rs1129634 -- 170,584,305(+) TCGCA(A/G)GCCGG nc-transcript-variant, reference, synonymous-codon, missense
rs960744 -- 170,579,120(-) ACTGG(C/T)ACAGC intron-variant
rs2066954 -- 170,582,405(-) TGAGC(A/C)ATACA intron-variant, utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for PDCD2 Gene

Variant ID Type Subtype PubMed ID
esv344 CNV CNV 17122850
nsv428158 CNV Gain 18775914
dgv2041e1 CNV Complex 17122850
nsv830874 CNV Loss 17160897

Variation tolerance for PDCD2 Gene

Residual Variation Intolerance Score: 70% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.07; 50.64% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PDCD2 Gene

HapMap Linkage Disequilibrium report
PDCD2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PDCD2 Gene

Disorders for PDCD2 Gene

MalaCards: The human disease database

(1) MalaCards diseases for PDCD2 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
chronic fatigue syndrome
  • cfs
- elite association - COSMIC cancer census association via MalaCards
Search PDCD2 in MalaCards View complete list of genes associated with diseases

Relevant External Links for PDCD2

Genetic Association Database (GAD)
PDCD2
Human Genome Epidemiology (HuGE) Navigator
PDCD2
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PDCD2
genes like me logo Genes that share disorders with PDCD2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for PDCD2 Gene

Publications for PDCD2 Gene

  1. Isolation and mapping of a human gene (PDCD2) that is highly homologous to Rp8, a rat gene associated with programmed cell death. (PMID: 7606924) Kawakami T. … Nakamura Y. (Cytogenet. Cell Genet. 1995) 2 3 4 23 67
  2. The human programmed cell death-2 (PDCD2) gene is a target of BCL6 repression: implications for a role of BCL6 in the down-regulation of apoptosis. (PMID: 11854457) Baron B.W. … McKeithan T.W. (Proc. Natl. Acad. Sci. U.S.A. 2002) 3 23
  3. Programmed cell death 2 protein induces gastric cancer cell growth arrest at the early S phase of the cell cycle and apoptosis in a p53-dependent manner. (PMID: 25334010) Zhang J. … Zhang F.J. (Oncol. Rep. 2015) 3
  4. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3
  5. Zfrp8/PDCD2 is required in ovarian stem cells and interacts with the piRNA pathway machinery. (PMID: 24381196) Minakhina S. … Steward R. (Development 2014) 3

Products for PDCD2 Gene

Sources for PDCD2 Gene

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