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PPM1B protein phosphatase, Mg2+/Mn2+ dependent 1B [ Homo sapiens (human) ]

Gene ID: 5495, updated on 4-Jan-2025

Summary

Official Symbol
PPM1Bprovided by HGNC
Official Full Name
protein phosphatase, Mg2+/Mn2+ dependent 1Bprovided by HGNC
Primary source
HGNC:HGNC:9276
See related
Ensembl:ENSG00000138032 MIM:603770; AllianceGenome:HGNC:9276
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
PP2CB; PP2CBETA; PP2C-beta; PPC2BETAX; PP2C-beta-X
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 has been shown to dephosphorylate cyclin-dependent kinases (CDKs), and thus may be involved in cell cycle control. Overexpression of this phosphatase is reported to cause cell-growth arrest or cell death. Alternative splicing results in multiple transcript variants encoding different isoforms. Additional transcript variants have been described, but currently do not represent full-length sequences. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in fat (RPKM 9.6), brain (RPKM 8.7) and 25 other tissues See more
Orthologs
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Genomic context

See PPM1B in Genome Data Viewer
Location:
2p21
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (44168875..44246928)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (44174224..44253771)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (44396014..44461785)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene RNA, U6 small nuclear 566, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11430 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11431 Neighboring gene PPM1B divergent transcript Neighboring gene decaprenyl diphosphate synthase subunit 1 pseudogene 2 Neighboring gene Sharpr-MPRA regulatory region 13633 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15684 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:44415461-44416353 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:44461053-44461554 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:44461555-44462054 Neighboring gene uncharacterized LOC124906174 Neighboring gene ribosomal protein L12 pseudogene 19 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:44513823-44514378 Neighboring gene solute carrier family 3 member 1 Neighboring gene prolyl endopeptidase like

Genomic regions, transcripts, and products

Expression

  • Project title: Tissue-specific circular RNA induction during human fetal development
  • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
  • BioProject: PRJNA270632
  • Publication: PMID 26076956
  • Analysis date: Mon Apr 2 22:54:59 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

EBI GWAS Catalog

Description
Genome-wide meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture.
EBI GWAS Catalog

Pathways from PubChem

Interactions

General gene information

Clone Names

  • MGC21657

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables MAP kinase serine/threonine phosphatase activity  
enables RNA polymerase II CTD heptapeptide repeat S2 phosphatase activity  
enables RNA polymerase II CTD heptapeptide repeat S5 phosphatase activity  
enables RNA polymerase II CTD heptapeptide repeat S7 phosphatase activity  
enables RNA polymerase II CTD heptapeptide repeat T4 phosphatase activity  
enables RNA polymerase II CTD heptapeptide repeat Y1 phosphatase activity  
enables calmodulin-dependent protein phosphatase activity  
enables histone H2AXS140 phosphatase activity  
enables magnesium ion binding  
enables manganese ion binding  
enables myosin phosphatase activity  
enables protein binding PubMed 
enables protein serine/threonine phosphatase activity  
enables protein serine/threonine phosphatase activity PubMed 
Component Evidence Code Pubs
is_active_in cytosol  
located_in cytosol  
located_in cytosol  
located_in cytosol  
located_in membrane  
located_in nucleolus  
is_active_in nucleus  

General protein information

Preferred Names
protein phosphatase 1B
Names
protein phosphatase 2C-like protein
NP_001028729.1
NP_002697.1
NP_808907.1
NP_808908.1
XP_011531238.1
XP_047300791.1
XP_047300792.1
XP_047300793.1
XP_054198656.1
XP_054198657.1
XP_054198658.1
XP_054198659.1

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.

Genomic

  1. NG_011678.2 RefSeqGene

    Range
    5002..67599
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001033557.3NP_001028729.1  protein phosphatase 1B isoform 5

    See identical proteins and their annotated locations for NP_001028729.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) contains an alternate 3' terminal exon, and it thus differs in the 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (5) has a distinct C-terminus and is shorter than isoform 1.
    Source sequence(s)
    AA742374, DA128532, DQ023510
    Consensus CDS
    CCDS46271.1
    UniProtKB/TrEMBL
    C9JIR6
    Related
    ENSP00000387287.3, ENST00000409432.7
    Conserved Domains (2) summary
    cd00143
    Location:23295
    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:289365
    PP2C_C; Protein serine/threonine phosphatase 2C, C-terminal domain
  2. NM_002706.6NP_002697.1  protein phosphatase 1B isoform 1

    See identical proteins and their annotated locations for NP_002697.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AL833035, BC064381, DA128532
    Consensus CDS
    CCDS1817.1
    UniProtKB/Swiss-Prot
    O75688, Q461Q2, Q4J6C1, Q4J6C2, Q658R4, Q96ER6, Q9HAY8
    UniProtKB/TrEMBL
    B3KP90
    Related
    ENSP00000282412.4, ENST00000282412.9
    Conserved Domains (2) summary
    cd00143
    Location:23295
    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:289368
    PP2C_C; Protein serine/threonine phosphatase 2C, C-terminal domain
  3. NM_177968.4NP_808907.1  protein phosphatase 1B isoform 2

    See identical proteins and their annotated locations for NP_808907.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) contains an alternate 3' terminal exon, and it thus differs in the 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (2) has a distinct C-terminus and is shorter than isoform 1.
    Source sequence(s)
    AC013717, DA128532, DQ023508
    Consensus CDS
    CCDS1816.1
    UniProtKB/TrEMBL
    A8K599
    Related
    ENSP00000367813.2, ENST00000378551.6
    Conserved Domains (2) summary
    cd00143
    Location:23295
    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:289368
    PP2C_C; Protein serine/threonine phosphatase 2C, C-terminal domain
  4. NM_177969.4NP_808908.1  protein phosphatase 1B isoform 3

    See identical proteins and their annotated locations for NP_808908.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an alternate exon, and it thus differs in its 5' UTR and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (3) is shorter at the N-terminus, compared to isoform 1.
    Source sequence(s)
    AL833035, BC012002, DA128532
    Consensus CDS
    CCDS1818.1
    UniProtKB/Swiss-Prot
    O75688
    Related
    ENSP00000326089.4, ENST00000345249.8
    Conserved Domains (1) summary
    pfam07830
    Location:281
    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_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    44168875..44246928
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011532936.4XP_011531238.1  protein phosphatase 1B isoform X2

    UniProtKB/TrEMBL
    Q4J6C0
    Conserved Domains (2) summary
    cd00143
    Location:23295
    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:289365
    PP2C_C; Protein serine/threonine phosphatase 2C, C-terminal domain
  2. XM_047444837.1XP_047300793.1  protein phosphatase 1B isoform X4

    UniProtKB/TrEMBL
    C9JIR6
  3. XM_047444835.1XP_047300791.1  protein phosphatase 1B isoform X1

    UniProtKB/Swiss-Prot
    O75688, Q461Q2, Q4J6C1, Q4J6C2, Q658R4, Q96ER6, Q9HAY8
    UniProtKB/TrEMBL
    B3KP90
  4. XM_047444836.1XP_047300792.1  protein phosphatase 1B isoform X3

    UniProtKB/TrEMBL
    A8K599

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    44174224..44253771
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054342682.1XP_054198657.1  protein phosphatase 1B isoform X2

    UniProtKB/TrEMBL
    Q4J6C0
  2. XM_054342684.1XP_054198659.1  protein phosphatase 1B isoform X4

    UniProtKB/TrEMBL
    C9JIR6
  3. XM_054342681.1XP_054198656.1  protein phosphatase 1B isoform X1

    UniProtKB/Swiss-Prot
    O75688, Q461Q2, Q4J6C1, Q4J6C2, Q658R4, Q96ER6, Q9HAY8
    UniProtKB/TrEMBL
    B3KP90
  4. XM_054342683.1XP_054198658.1  protein phosphatase 1B isoform X3

    UniProtKB/TrEMBL
    A8K599

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