PPP4C protein phosphatase 4 catalytic subunit [Homo sapiens (human)] - Gene

Summary

Official Symbol: PPP4Cprovided by HGNC
Official Full Name: protein phosphatase 4 catalytic subunitprovided by HGNC
Primary source: HGNC:HGNC:9319
See related: Ensembl:ENSG00000149923 MIM:602035; AllianceGenome:HGNC:9319
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: PP4; PPX; PP-X; PP4C; PPH3; PPP4
Summary: Enables protein serine/threonine phosphatase activity. Involved in regulation of double-strand break repair via homologous recombination. Located in cytosol; nucleoplasm; and plasma membrane. Part of chromatin and protein phosphatase 4 complex. [provided by Alliance of Genome Resources, Dec 2024]
Expression: Ubiquitous expression in testis (RPKM 31.5), placenta (RPKM 25.7) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 16p11.2

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	16	NC_000016.10 (30075994..30085376)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	16	NC_060940.1 (30358641..30368019)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	16	NC_000016.9 (30087315..30096697)

Chromosome 16 - NC_000016.10 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
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?

Comprehensive analysis of PPP4C's impact on prognosis, immune microenvironment, and immunotherapy response in lung adenocarcinoma using single-cell sequencing and multi-omics.
Title: Comprehensive analysis of PPP4C's impact on prognosis, immune microenvironment, and immunotherapy response in lung adenocarcinoma using single-cell sequencing and multi-omics.
AMBRA1 promotes intestinal inflammation by antagonizing PP4R1/PP4c mediated IKK dephosphorylation in an autophagy-independent manner.
Title: AMBRA1 promotes intestinal inflammation by antagonizing PP4R1/PP4c mediated IKK dephosphorylation in an autophagy-independent manner.
DOK3 promotes atopic dermatitis by enabling the phosphatase PP4C to inhibit the T cell signaling mediator CARD11.
Title: DOK3 promotes atopic dermatitis by enabling the phosphatase PP4C to inhibit the T cell signaling mediator CARD11.
Protein Phosphatase 4 Is Required for Centrobin Function in DNA Damage Repair.
Title: Protein Phosphatase 4 Is Required for Centrobin Function in DNA Damage Repair.
SIRT1 regulates DNA damage signaling through the PP4 phosphatase complex.
Title: SIRT1 regulates DNA damage signaling through the PP4 phosphatase complex.
Loss of PP4 contributes to diesel exhaust particles-induced epithelial barrier integrity disruption and alarmins release.
Title: Loss of PP4 contributes to diesel exhaust particles-induced epithelial barrier integrity disruption and alarmins release.
Comprehensive analysis of PPPCs family reveals the clinical significance of PPP1CA and PPP4C in breast cancer.
Title: Comprehensive analysis of PPPCs family reveals the clinical significance of PPP1CA and PPP4C in breast cancer.
PP4C facilitates lung cancer proliferation and inhibits apoptosis via activating MAPK/ERK pathway.
Title: PP4C facilitates lung cancer proliferation and inhibits apoptosis via activating MAPK/ERK pathway.
Sciatic nerve but not spinal injury induces calcium-dependent PP4 activity that is required for HDAC3 dephosphorylation.
Title: PP4-dependent HDAC3 dephosphorylation discriminates between axonal regeneration and regenerative failure.
PP4 regulates breast cancer cell survival and identifies a novel PP4c-PEA15 signalling axis in the control of breast cancer cell survival.
Title: The protein phosphatase 4 - PEA15 axis regulates the survival of breast cancer cells.

Submit: New GeneRIF Correction See all GeneRIFs (37)

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

EBI GWAS Catalog

Description
Biological insights from 108 schizophrenia-associated genetic loci. EBI GWAS Catalog EBI GWAS CatalogPubMed

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

RH70885 (e-PCR)
- UniSTS:90752

D16S3225 (e-PCR)
- UniSTS:78497

D20S1002 (e-PCR)
- UniSTS:154618

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables MAP kinase serine/threonine phosphatase activity	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II CTD heptapeptide repeat S2 phosphatase activity	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II CTD heptapeptide repeat S5 phosphatase activity	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II CTD heptapeptide repeat S7 phosphatase activity	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II CTD heptapeptide repeat T4 phosphatase activity	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II CTD heptapeptide repeat Y1 phosphatase activity	IEA Inferred from Electronic Annotation more info
enables calmodulin-dependent protein phosphatase activity	IEA Inferred from Electronic Annotation more info
enables histone H2AXS140 phosphatase activity	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables myosin phosphatase activity	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein serine/threonine phosphatase activity	IBA Inferred from Biological aspect of Ancestor more info
enables protein serine/threonine phosphatase activity	IDA Inferred from Direct Assay more info	PubMed
enables protein serine/threonine phosphatase activity	NAS Non-traceable Author Statement more info	PubMed

Process	Evidence Code	Pubs
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in double-strand break repair via homologous recombination	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of double-strand break repair	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of double-strand break repair via homologous recombination	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in centrosome	IEA Inferred from Electronic Annotation more info
located_in chromatin	IDA Inferred from Direct Assay more info	PubMed
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	IDA Inferred from Direct Assay more info
located_in nucleoplasm	IDA Inferred from Direct Assay more info
located_in nucleoplasm	TAS Traceable Author Statement more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IDA Inferred from Direct Assay more info
part_of protein phosphatase 4 complex	IPI Inferred from Physical Interaction more info	PubMed

General protein information

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Preferred Names: serine/threonine-protein phosphatase 4 catalytic subunit

Names: epididymis secretory sperm binding protein; protein phosphatase 4 (formerly X), catalytic subunit; protein phosphatase X, catalytic subunit

NP_001290432.1

EC 3.1.3.16

NP_001290433.1

EC 3.1.3.16

NP_001290435.1

EC 3.1.3.16

NP_001290436.1

EC 3.1.3.16

NP_002711.1

EC 3.1.3.16

XP_006721124.1

EC 3.1.3.16

XP_054169384.1

EC 3.1.3.16

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_001303503.2 → NP_001290432.1 serine/threonine-protein phosphatase 4 catalytic subunit isoform 1

See identical proteins and their annotated locations for NP_001290432.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) encodes the longest isoform (1). Both variants 1 and 2 encode the same isoform (1).

Source sequence(s)

AA765831, AF097996, BC001416, BG705710

Consensus CDS

CCDS10669.1

UniProtKB/Swiss-Prot

P33172, P60510

UniProtKB/TrEMBL

A0A024R625, Q5U086

Conserved Domains (1) summary

cd07415
Location:6 → 290

MPP_PP2A_PP4_PP6; PP2A, PP4, and PP6 phosphoprotein phosphatases, metallophosphatase domain
NM_001303504.2 → NP_001290433.1 serine/threonine-protein phosphatase 4 catalytic subunit isoform 2

See identical proteins and their annotated locations for NP_001290433.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) differs in the 5' UTR and lacks an alternate in-frame exon in the central coding region, compared to variant 1. It encodes isoform 2 which is shorter compared to isoform 1.

Source sequence(s)

AA765831, AF097996, BG705710, BQ220878

UniProtKB/TrEMBL

H3BTA2

Related

ENSP00000457089.1, ENST00000562664.5

Conserved Domains (1) summary

cd07415
Location:6 → 256

MPP_PP2A_PP4_PP6; PP2A, PP4, and PP6 phosphoprotein phosphatases, metallophosphatase domain
NM_001303506.2 → NP_001290435.1 serine/threonine-protein phosphatase 4 catalytic subunit isoform 3

See identical proteins and their annotated locations for NP_001290435.1

Status: VALIDATED

Description

Transcript Variant: This variant (5) differs in the 5' UTR, uses an alternate splice site in an internal exon and uses a downstream start codon compared to variant 1. It encodes isoform 3 which has a shorter N-terminus compared to isoform 1. Both variants 4 and 5 encode the same isoform (3).

Source sequence(s)

AA765831, AF097996, BG705710, BG741669

UniProtKB/TrEMBL

H3BTA2

Conserved Domains (1) summary

cd07415
Location:1 → 211

MPP_PP2A_PP4_PP6; PP2A, PP4, and PP6 phosphoprotein phosphatases, metallophosphatase domain
NM_001303507.2 → NP_001290436.1 serine/threonine-protein phosphatase 4 catalytic subunit isoform 3

See identical proteins and their annotated locations for NP_001290436.1

Status: VALIDATED

Description

Transcript Variant: This variant (6) differs in the 5' UTR, lacks an alternate internal exon and uses a downstream start codon compared to variant 1. It encodes isoform 3 which has a shorter N-terminus compared to isoform 1. Both variants 4 and 5 encode the same isoform (3).

Source sequence(s)

AA765831, AF097996, AL519181, BG706310

UniProtKB/TrEMBL

H3BTA2

Conserved Domains (1) summary

cd07415
Location:1 → 211

MPP_PP2A_PP4_PP6; PP2A, PP4, and PP6 phosphoprotein phosphatases, metallophosphatase domain
NM_002720.3 → NP_002711.1 serine/threonine-protein phosphatase 4 catalytic subunit isoform 1

See identical proteins and their annotated locations for NP_002711.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same isoform (1).

Source sequence(s)

AA765831, AF097996, BG705710

Consensus CDS

CCDS10669.1

UniProtKB/Swiss-Prot

P33172, P60510

UniProtKB/TrEMBL

A0A024R625, Q5U086

Related

ENSP00000279387.7, ENST00000279387.12

Conserved Domains (1) summary

cd07415
Location:6 → 290

MPP_PP2A_PP4_PP6; PP2A, PP4, and PP6 phosphoprotein phosphatases, metallophosphatase domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000016.10 Reference GRCh38.p14 Primary Assembly

Range

30075994..30085376

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006721061.5 → XP_006721124.1 serine/threonine-protein phosphatase 4 catalytic subunit isoform X1

See identical proteins and their annotated locations for XP_006721124.1

UniProtKB/TrEMBL

H3BTA2

Conserved Domains (1) summary

cd07415
Location:6 → 256

MPP_PP2A_PP4_PP6; PP2A, PP4, and PP6 phosphoprotein phosphatases, metallophosphatase domain