PDCD4 programmed cell death 4 [Homo sapiens (human)] - Gene

Summary

Official Symbol: PDCD4provided by HGNC
Official Full Name: programmed cell death 4provided by HGNC
Primary source: HGNC:HGNC:8763
See related: Ensembl:ENSG00000150593 MIM:608610; AllianceGenome:HGNC:8763
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: H731
Summary: 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]
Expression: Ubiquitous expression in colon (RPKM 80.4), thyroid (RPKM 70.8) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 10q25.2

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	10	NC_000010.11 (110871928..110900006)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	10	NC_060934.1 (111755712..111783789)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	10	NC_000010.10 (112631686..112659764)

Chromosome 10 - NC_000010.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

PDCD4 and MIR-21 are promising biomarkers in the follow-up of OED in liquid biopsies.
Title: PDCD4 and MIR-21 are promising biomarkers in the follow-up of OED in liquid biopsies.
Human tumor suppressor protein Pdcd4 binds at the mRNA entry channel in the 40S small ribosomal subunit.
Title: Human tumor suppressor protein Pdcd4 binds at the mRNA entry channel in the 40S small ribosomal subunit.
PDCD4 interacting with PIK3CB and CTSZ promotes the apoptosis of multiple myeloma cells.
Title: PDCD4 interacting with PIK3CB and CTSZ promotes the apoptosis of multiple myeloma cells.
STAT1 mediated downregulation of the tumor suppressor gene PDCD4, is driven by the atypical cadherin FAT1, in glioblastoma.
Title: STAT1 mediated downregulation of the tumor suppressor gene PDCD4, is driven by the atypical cadherin FAT1, in glioblastoma.
MicroRNA-181b-5p Facilitates Thyroid Cancer Growth via Targeting Programmed Cell Death 4.
Title: MicroRNA-181b-5p Facilitates Thyroid Cancer Growth via Targeting Programmed Cell Death 4.
PDCD4 deficiency improved 4-vinylcyclohexene dioxide-induced mouse premature ovarian insufficiency.
Title: PDCD4 deficiency improved 4-vinylcyclohexene dioxide-induced mouse premature ovarian insufficiency.
Progress on the relationship between tumor suppressor PDCD4 and diseases based on the analysis of structural characteristics.
Title: Progress on the relationship between tumor suppressor PDCD4 and diseases based on the analysis of structural characteristics.
[PDCD4 knockdown ameliorates lipopolysaccharide-induced endothelial cell damage by improving mitochondrial dynamics].
Title: [PDCD4 knockdown ameliorates lipopolysaccharide-induced endothelial cell damage by improving mitochondrial dynamics].
Upregulated MicroRNA-21 Drives the Proliferation of Lymphatic Malformation Endothelial Cells by Inhibiting PDCD4.
Title: Upregulated MicroRNA-21 Drives the Proliferation of Lymphatic Malformation Endothelial Cells by Inhibiting PDCD4.
PRMT5 knockdown enhances cell viability and suppresses cell apoptosis, oxidative stress, inflammation and endothelial dysfunction in ox-LDL-induced vascular endothelial cells via interacting with PDCD4.
Title: PRMT5 knockdown enhances cell viability and suppresses cell apoptosis, oxidative stress, inflammation and endothelial dysfunction in ox-LDL-induced vascular endothelial cells via interacting with PDCD4.

Submit: New GeneRIF Correction See all GeneRIFs (266)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH93337 (e-PCR)
- UniSTS:83971

NoName (e-PCR)
- UniSTS:9484

G65626 (e-PCR)
- UniSTS:225562

D1S1361 (e-PCR)
- UniSTS:149557

PDCD4_1402 (e-PCR)
- UniSTS:277571

PDCD4_v461 (e-PCR)
- UniSTS:277571

SHGC-35716 (e-PCR)
- UniSTS:82555

SHGC-64020 (e-PCR)
- UniSTS:18595

RH44872 (e-PCR)
- UniSTS:27820

MARC_26204-26205:1030736270:1 (e-PCR)
- UniSTS:268985

RH44657 (e-PCR)
- UniSTS:40387

SHGC-133074 (e-PCR)
- UniSTS:171002

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in BMP signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in cellular response to lipopolysaccharide	ISS Inferred from Sequence or Structural Similarity more info
involved_in epithelial to mesenchymal transition involved in cardiac fibroblast development	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of DNA-templated transcription	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of JUN kinase activity	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of cytokine production involved in inflammatory response	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of myofibroblast differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of vascular associated smooth muscle cell differentiation	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of vascular associated smooth muscle cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of endothelial cell apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of inflammatory response	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of non-canonical NF-kappaB signal transduction	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of vascular associated smooth muscle cell apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in response to alkaloid	IEA Inferred from Electronic Annotation more info
involved_in response to hormone	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cytoplasm	IMP Inferred from Mutant Phenotype more info	PubMed
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	TAS Traceable Author Statement more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IMP Inferred from Mutant Phenotype more info	PubMed
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: programmed cell death protein 4

Names: neoplastic transformation inhibitor protein; nuclear antigen H731; programmed cell death 4 (neoplastic transformation inhibitor); protein 197/15a

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001199492.2 → NP_001186421.1 programmed cell death protein 4 isoform 3

Status: REVIEWED

Description

Transcript Variant: This variant (3) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1. The resulting protein (isoform 3) is shorter, compared to isoform 1.

Source sequence(s)

AK296753, AL136368, AL158163, BX647834

UniProtKB/TrEMBL

B4DKX4

Conserved Domains (1) summary

smart00544
Location:313 → 426

MA3; Domain in DAP-5, eIF4G, MA-3 and other proteins
NM_014456.5 → NP_055271.2 programmed cell death protein 4 isoform 1

See identical proteins and their annotated locations for NP_055271.2

Status: REVIEWED

Description

Transcript Variant: This variant (1) encodes the longest isoform (1).

Source sequence(s)

AL136368, AL158163, BC026104, BX647834, DB241608

Consensus CDS

CCDS7567.1

UniProtKB/Swiss-Prot

B2RCV4, B5ME91, O15501, Q53EL6, Q5VZS6, Q6PJI5, Q8TAR5, Q99834

UniProtKB/TrEMBL

B2R6E2

Related

ENSP00000280154.7, ENST00000280154.12

Conserved Domains (1) summary

smart00544
Location:327 → 440

MA3; Domain in DAP-5, eIF4G, MA-3 and other proteins
NM_145341.4 → NP_663314.1 programmed cell death protein 4 isoform 2

See identical proteins and their annotated locations for NP_663314.1

Status: REVIEWED

Description

Transcript Variant: This variant (2) includes an alternate exon in the 5' coding region and utilizes a downstream start codon, compared to variant 1. The resulting protein (isoform 2) has a shorter and distinct N-terminus, compared to isoform 1.

Source sequence(s)

AK315295, AL136368, AL158163, BX647834

Consensus CDS

CCDS44478.1

UniProtKB/TrEMBL

B2R6E2

Related

ENSP00000376816.2, ENST00000393104.6

Conserved Domains (1) summary

smart00544
Location:316 → 429

MA3; Domain in DAP-5, eIF4G, MA-3 and other proteins