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    CAPN2 calpain 2 [ Homo sapiens (human) ]

    Gene ID: 824, updated on 7-Jul-2024

    Summary

    Official Symbol
    CAPN2provided by HGNC
    Official Full Name
    calpain 2provided by HGNC
    Primary source
    HGNC:HGNC:1479
    See related
    Ensembl:ENSG00000162909 MIM:114230; AllianceGenome:HGNC:1479
    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
    CANP2; mCANP; CANPL2; CANPml
    Summary
    The calpains, calcium-activated neutral proteases, are nonlysosomal, intracellular cysteine proteases. The mammalian calpains include ubiquitous, stomach-specific, and muscle-specific proteins. The ubiquitous enzymes consist of heterodimers with distinct large, catalytic subunits associated with a common small, regulatory subunit. This gene encodes the large subunit of the ubiquitous enzyme, calpain 2. Multiple heterogeneous transcriptional start sites in the 5' UTR have been reported. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Mar 2009]
    Expression
    Ubiquitous expression in lung (RPKM 90.0), gall bladder (RPKM 66.0) and 25 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See CAPN2 in Genome Data Viewer
    Location:
    1q41
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (223701597..223776018)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (222891307..222965751)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (223889299..223963720)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene calpain 8 Neighboring gene SNRPE pseudogene 10 Neighboring gene uncharacterized LOC105373281 Neighboring gene RNA, U6 small nuclear 1248, pseudogene Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:223888788-223889634 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr1:223894361-223895560 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:223895561-223896060 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2591 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:223899927-223900878 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_5382 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:223906461-223907308 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:223915193-223915853 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:223919231-223919826 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:223921601-223922461 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:223926031-223926546 Neighboring gene uncharacterized LOC105373046 Neighboring gene Sharpr-MPRA regulatory region 14236 Neighboring gene Sharpr-MPRA regulatory region 3187 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr1:223939947-223941146 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:223959947-223960602 Neighboring gene uncharacterized LOC105373041 Neighboring gene tumor protein p53 binding protein 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1844 Neighboring gene PHB1 pseudogene 11

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env Activation of the Ca(2+)-dependent protease, calpain, is involved in cytotoxic effects mediated by HIV-1 gp120 in neuroblastoma cultures PubMed
    Tat tat HIV-1 Tat increases plasma membrane (PM) dopamine transporter (DAT) activity and calpain protease activity at the PM 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

    • FLJ39928

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables calcium-dependent cysteine-type endopeptidase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables calcium-dependent cysteine-type endopeptidase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables calcium-dependent cysteine-type endopeptidase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables cysteine-type peptidase activity TAS
    Traceable Author Statement
    more info
    PubMed 
    enables cytoskeletal protein binding NAS
    Non-traceable Author Statement
    more info
    PubMed 
    enables enzyme binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein-containing complex binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in behavioral response to pain IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in blastocyst development IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cellular response to amino acid stimulus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in cellular response to interferon-beta IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cellular response to lipopolysaccharide IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in female pregnancy IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in myoblast fusion IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of cardiac muscle cell apoptotic process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of myoblast fusion IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of phosphatidylcholine biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in protein autoprocessing IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in proteolysis IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in proteolysis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in proteolysis NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in proteolysis involved in protein catabolic process IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in regulation of cytoskeleton organization TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in regulation of interleukin-6 production IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in response to hydrogen peroxide IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in response to hypoxia IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in response to mechanical stimulus IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    located_in Golgi apparatus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of calpain complex IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    part_of chromatin IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cortical actin cytoskeleton TAS
    Traceable Author Statement
    more info
    PubMed 
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    located_in dendrite ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in endoplasmic reticulum IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in external side of plasma membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in extracellular exosome HDA PubMed 
    located_in focal adhesion HDA PubMed 
    located_in lysosome IEA
    Inferred from Electronic Annotation
    more info
     
    colocalizes_with membrane raft IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in membrane raft IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in neuronal cell body IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    located_in perinuclear endoplasmic reticulum IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
     
    located_in pseudopodium IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    calpain-2 catalytic subunit
    Names
    CANP 2
    M-calpain
    calcium-activated neutral proteinase 2
    calpain 2, (m/II) large subunit
    calpain 2, large [catalytic] subunit
    calpain 2, large subunit
    calpain M-type
    calpain, large polypeptide L2
    millimolar-calpain
    NP_001139540.1
    NP_001739.3
    XP_047287300.1
    XP_054194910.1

    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.

    mRNA and Protein(s)

    1. NM_001146068.2NP_001139540.1  calpain-2 catalytic subunit isoform 2

      See identical proteins and their annotated locations for NP_001139540.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) has a shorter and distinct N-terminus compared to isoform 1.
      Source sequence(s)
      AC096542, AC099065
      Consensus CDS
      CCDS53478.1
      UniProtKB/TrEMBL
      B4DN77
      Related
      ENSP00000413158.2, ENST00000433674.6
      Conserved Domains (3) summary
      pfam00648
      Location:2264
      Peptidase_C2; Calpain family cysteine protease
      pfam01067
      Location:285429
      Calpain_III; Calpain large subunit, domain III
      cd16199
      Location:455622
      EFh_PEF_CAPN2; Penta-EF hand, calcium binding motifs, found in m-type calpain (CAPN2)
    2. NM_001748.5NP_001739.3  calpain-2 catalytic subunit isoform 1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AC096542, AC099065
      Consensus CDS
      CCDS31035.1
      UniProtKB/Swiss-Prot
      A6NDG7, B7ZA96, E7ES58, P17655, Q16738, Q6PJT3, Q8WU26, Q9HBB1
      UniProtKB/TrEMBL
      B2RCM3
      Related
      ENSP00000295006.5, ENST00000295006.6
      Conserved Domains (3) summary
      pfam00648
      Location:46342
      Peptidase_C2; Calpain family cysteine protease
      pfam01067
      Location:363507
      Calpain_III; Calpain large subunit, domain III
      cd16199
      Location:533700
      EFh_PEF_CAPN2; Penta-EF hand, calcium binding motifs, found in m-type calpain (CAPN2)

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      223701597..223776018
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047431344.1XP_047287300.1  calpain-2 catalytic subunit isoform X1

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      222891307..222965751
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054338935.1XP_054194910.1  calpain-2 catalytic subunit isoform X1