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

Gene ID: 5531, updated on 6-Oct-2024

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. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in testis (RPKM 31.5), placenta (RPKM 25.7) and 25 other tissues See more
Orthologs
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Genomic context

See PPP4C in Genome Data Viewer
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_000016.10Genomic Context describing neighboring genes Neighboring gene chromosome 16 open reading frame 92 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:30039801-30040645 Neighboring gene TLC domain containing 3B Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7348 Neighboring gene MPRA-validated peak2562 silencer Neighboring gene uncharaterized LOC112694756 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:30064875-30065853 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:30065854-30066831 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:30076132-30076912 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7349 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7350 Neighboring gene aldolase, fructose-bisphosphate A Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10688 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7351 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10689 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:30096821-30096985 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:30101709-30102582 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7352 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10690 Neighboring gene T-box transcription factor 6 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:30107354-30107960 Neighboring gene yippee like 3

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by GOA

Function Evidence Code Pubs
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 
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

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
NP_001290433.1
NP_001290435.1
NP_001290436.1
NP_002711.1
XP_006721124.1
XP_054169384.1

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)

  1. NM_001303503.2NP_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:6290
    MPP_PP2A_PP4_PP6; PP2A, PP4, and PP6 phosphoprotein phosphatases, metallophosphatase domain
  2. NM_001303504.2NP_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:6256
    MPP_PP2A_PP4_PP6; PP2A, PP4, and PP6 phosphoprotein phosphatases, metallophosphatase domain
  3. NM_001303506.2NP_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:1211
    MPP_PP2A_PP4_PP6; PP2A, PP4, and PP6 phosphoprotein phosphatases, metallophosphatase domain
  4. NM_001303507.2NP_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:1211
    MPP_PP2A_PP4_PP6; PP2A, PP4, and PP6 phosphoprotein phosphatases, metallophosphatase domain
  5. NM_002720.3NP_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:6290
    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

  1. NC_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    30075994..30085376
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006721061.5XP_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:6256
    MPP_PP2A_PP4_PP6; PP2A, PP4, and PP6 phosphoprotein phosphatases, metallophosphatase domain

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    30358641..30368019
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054313409.1XP_054169384.1  serine/threonine-protein phosphatase 4 catalytic subunit isoform X1

    UniProtKB/TrEMBL
    H3BTA2