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    PPM1A protein phosphatase, Mg2+/Mn2+ dependent 1A [ Homo sapiens (human) ]

    Gene ID: 5494, updated on 28-Oct-2024

    Summary

    Official Symbol
    PPM1Aprovided by HGNC
    Official Full Name
    protein phosphatase, Mg2+/Mn2+ dependent 1Aprovided by HGNC
    Primary source
    HGNC:HGNC:9275
    See related
    Ensembl:ENSG00000100614 MIM:606108; AllianceGenome:HGNC:9275
    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
    PP2CA; PP2Calpha; PP2C-ALPHA
    Summary
    The protein encoded by this gene is a member of the PP2C family of Ser/Thr protein phosphatases. PP2C family members are known to be negative regulators of cell stress response pathways. This phosphatase dephosphorylates, and negatively regulates the activities of, MAP kinases and MAP kinase kinases. It has been shown to inhibit the activation of p38 and JNK kinase cascades induced by environmental stresses. This phosphatase can also dephosphorylate cyclin-dependent kinases, and thus may be involved in cell cycle control. Overexpression of this phosphatase is reported to activate the expression of the tumor suppressor gene TP53/p53, which leads to G2/M cell cycle arrest and apoptosis. Three alternatively spliced transcript variants encoding distinct isoforms have been described. [provided by RefSeq, Jul 2008]
    Expression
    Ubiquitous expression in bone marrow (RPKM 10.2), brain (RPKM 9.4) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See PPM1A in Genome Data Viewer
    Location:
    14q23.1
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (60245750..60299087)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (54452043..54505381)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (60712468..60765805)

    Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8471 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8472 Neighboring gene ribosomal protein L17 pseudogene 2 Neighboring gene uncharacterized LOC101927702 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8473 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:60715285-60716013 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5810 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr14:60748999-60750198 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:60782171-60783050 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:60783051-60783930 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:60785365-60785909 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8476 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5811 Neighboring gene long intergenic non-protein coding RNA 2322 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8477 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8478 Neighboring gene GNRHR2 pseudogene 1 Neighboring gene RBM8A pseudogene 1

    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?

    Phenotypes

    EBI GWAS Catalog

    Description
    A genome-wide meta-analysis of genetic variants associated with allergic rhinitis and grass sensitization and their interaction with birth order.
    EBI GWAS Catalog

    HIV-1 interactions

    Replication interactions

    Interaction Pubs
    Knockdown of protein phosphatase, Mg2+/Mn2+ dependent, 1A (PPM1A) by siRNA ehnahces HIV-1 gene expression in resting CD4+ T cells PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC9201, FLJ42306

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables R-SMAD binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables calmodulin-dependent protein phosphatase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables magnesium ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables manganese 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 TAS
    Traceable Author Statement
    more info
     
    Process Evidence Code Pubs
    involved_in N-terminal protein myristoylation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in cellular response to transforming growth factor beta stimulus IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in dephosphorylation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of BMP signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of canonical NF-kappaB signal transduction IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of non-canonical NF-kappaB signal transduction IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of transcription by RNA polymerase II TAS
    Traceable Author Statement
    more info
     
    involved_in negative regulation of transforming growth factor beta receptor signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in peptidyl-threonine dephosphorylation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of canonical NF-kappaB signal transduction HMP PubMed 
    involved_in positive regulation of canonical Wnt signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of canonical Wnt signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of protein export from nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in protein dephosphorylation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in protein export from nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of canonical NF-kappaB signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of cell cycle TAS
    Traceable Author Statement
    more info
     
    Component Evidence Code Pubs
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
     
    located_in cytosol ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    located_in membrane ISS
    Inferred from Sequence or Structural Similarity
    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 nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
     

    General protein information

    Preferred Names
    protein phosphatase 1A
    NP_066283.1
    NP_808820.1
    NP_808821.2
    XP_011535183.1
    XP_011535185.1
    XP_016876872.1
    XP_024305405.1
    XP_047287455.1
    XP_047287456.1
    XP_047287457.1
    XP_047287458.1
    XP_047287459.1
    XP_047287460.1
    XP_047287461.1
    XP_047287462.1
    XP_047287463.1
    XP_047287464.1
    XP_047287465.1
    XP_047287466.1
    XP_047287467.1
    XP_047287468.1
    XP_047287469.1
    XP_047287470.1
    XP_047287471.1
    XP_047287472.1
    XP_054232229.1
    XP_054232230.1
    XP_054232231.1
    XP_054232232.1
    XP_054232233.1
    XP_054232234.1
    XP_054232235.1
    XP_054232236.1
    XP_054232237.1
    XP_054232238.1
    XP_054232239.1
    XP_054232240.1
    XP_054232241.1
    XP_054232242.1
    XP_054232243.1
    XP_054232244.1
    XP_054232245.1
    XP_054232246.1
    XP_054232247.1
    XP_054232248.1
    XP_054232249.1
    XP_054232250.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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.

    Genomic

    1. NG_029698.1 RefSeqGene

      Range
      8470..58336
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_021003.5NP_066283.1  protein phosphatase 1A isoform 1

      See identical proteins and their annotated locations for NP_066283.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) is the longest transcript and encodes isoform 1.
      Source sequence(s)
      AI076736, AL132778, AL157756, BC063243, DA439296
      Consensus CDS
      CCDS9744.1
      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
      UniProtKB/TrEMBL
      B2R8E4, B5BUD5
      Related
      ENSP00000378514.4, ENST00000395076.9
      Conserved Domains (2) summary
      cd00143
      Location:23291
      PP2Cc; Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence ...
      pfam07830
      Location:285363
      PP2C_C; Protein serine/threonine phosphatase 2C, C-terminal domain
    2. NM_177951.3NP_808820.1  protein phosphatase 1A isoform 2

      See identical proteins and their annotated locations for NP_808820.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) has an additional exon within the 5' UTR and lacks a few of 3' exons but has an alternate 3' segment, as compared to variant 1. The resulting isoform (2) has a distinct and shorter C-terminus, as compared to isoform 1.
      Source sequence(s)
      AF070670, AL157756, CB156710, DA439296
      Consensus CDS
      CCDS9745.1
      UniProtKB/TrEMBL
      B2R8E4, B5BUD5
      Related
      ENSP00000314850.3, ENST00000325658.3
      Conserved Domains (2) summary
      pfam00481
      Location:22284
      PP2C; Protein phosphatase 2C
      cl29762
      Location:285317
      PP2C_C; Protein serine/threonine phosphatase 2C, C-terminal domain
    3. NM_177952.3NP_808821.2  protein phosphatase 1A isoform 3

      See identical proteins and their annotated locations for NP_808821.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) has an alternate 5' exon, as compared to variant 1. It encodes isoform 3, which has a distinct and longer N-terminus, as compared to isoform 1.
      Source sequence(s)
      AI076736, AK097843, AK313337, AL132778, AL157756, BC063243
      Consensus CDS
      CCDS45120.1
      UniProtKB/TrEMBL
      B2R8E4, B5BUD5
      Related
      ENSP00000327255.3, ENST00000325642.7
      Conserved Domains (2) summary
      pfam00481
      Location:95357
      PP2C; Protein phosphatase 2C
      pfam07830
      Location:358433
      PP2C_C; Protein serine/threonine phosphatase 2C, C-terminal 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_000014.9 Reference GRCh38.p14 Primary Assembly

      Range
      60245750..60299087
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047431505.1XP_047287461.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    2. XM_047431508.1XP_047287464.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    3. XM_047431511.1XP_047287467.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    4. XM_047431512.1XP_047287468.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    5. XM_047431516.1XP_047287472.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    6. XM_047431499.1XP_047287455.1  protein phosphatase 1A isoform X1

    7. XM_047431501.1XP_047287457.1  protein phosphatase 1A isoform X1

    8. XM_017021383.2XP_016876872.1  protein phosphatase 1A isoform X1

      UniProtKB/TrEMBL
      B2R8E4, B5BUD5
    9. XM_047431507.1XP_047287463.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    10. XM_047431513.1XP_047287469.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    11. XM_047431515.1XP_047287471.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    12. XM_024449637.2XP_024305405.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
      UniProtKB/TrEMBL
      B2R8E4, B5BUD5
      Conserved Domains (2) summary
      cd00143
      Location:23291
      PP2Cc; Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence ...
      pfam07830
      Location:285363
      PP2C_C; Protein serine/threonine phosphatase 2C, C-terminal domain
    13. XM_047431500.1XP_047287456.1  protein phosphatase 1A isoform X1

    14. XM_047431510.1XP_047287466.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    15. XM_047431506.1XP_047287462.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    16. XM_047431514.1XP_047287470.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    17. XM_011536883.2XP_011535185.1  protein phosphatase 1A isoform X3

      See identical proteins and their annotated locations for XP_011535185.1

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
      UniProtKB/TrEMBL
      B2R8E4, B5BUD5
      Conserved Domains (2) summary
      cd00143
      Location:23291
      PP2Cc; Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence ...
      pfam07830
      Location:285363
      PP2C_C; Protein serine/threonine phosphatase 2C, C-terminal domain
    18. XM_047431509.1XP_047287465.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    19. XM_047431503.1XP_047287459.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    20. XM_047431504.1XP_047287460.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    21. XM_011536881.4XP_011535183.1  protein phosphatase 1A isoform X3

      See identical proteins and their annotated locations for XP_011535183.1

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
      UniProtKB/TrEMBL
      B2R8E4, B5BUD5
      Conserved Domains (2) summary
      cd00143
      Location:23291
      PP2Cc; Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence ...
      pfam07830
      Location:285363
      PP2C_C; Protein serine/threonine phosphatase 2C, C-terminal domain
    22. XM_047431502.1XP_047287458.1  protein phosphatase 1A isoform X2

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060938.1 Alternate T2T-CHM13v2.0

      Range
      54452043..54505381
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054376262.1XP_054232237.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    2. XM_054376265.1XP_054232240.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    3. XM_054376268.1XP_054232243.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    4. XM_054376269.1XP_054232244.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    5. XM_054376275.1XP_054232250.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    6. XM_054376254.1XP_054232229.1  protein phosphatase 1A isoform X1

    7. XM_054376256.1XP_054232231.1  protein phosphatase 1A isoform X1

    8. XM_054376257.1XP_054232232.1  protein phosphatase 1A isoform X1

    9. XM_054376264.1XP_054232239.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    10. XM_054376270.1XP_054232245.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    11. XM_054376272.1XP_054232247.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    12. XM_054376274.1XP_054232249.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    13. XM_054376255.1XP_054232230.1  protein phosphatase 1A isoform X1

    14. XM_054376267.1XP_054232242.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    15. XM_054376263.1XP_054232238.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    16. XM_054376271.1XP_054232246.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    17. XM_054376273.1XP_054232248.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    18. XM_054376266.1XP_054232241.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    19. XM_054376259.1XP_054232234.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    20. XM_054376260.1XP_054232235.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    21. XM_054376261.1XP_054232236.1  protein phosphatase 1A isoform X3

      UniProtKB/Swiss-Prot
      B5BU11, J3KNM0, O75551, P35813
    22. XM_054376258.1XP_054232233.1  protein phosphatase 1A isoform X2