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Agbl3 ATP/GTP binding protein-like 3 [ Mus musculus (house mouse) ]

Gene ID: 76223, updated on 2-Nov-2024

Summary

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Official Symbol
Agbl3provided by MGI
Official Full Name
ATP/GTP binding protein-like 3provided by MGI
Primary source
MGI:MGI:1923473
See related
Ensembl:ENSMUSG00000038836 AllianceGenome:MGI:1923473
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
CCP3; 2900053G10Rik; 4930431N21Rik; 6530406M24Rik
Summary
Enables metallocarboxypeptidase activity. Involved in protein side chain deglutamylation. Predicted to be located in cytosol. Predicted to be active in centriole and cytoplasm. Is expressed in brain; early embryo; genitourinary system; heart; and liver. Orthologous to human AGBL3 (AGBL carboxypeptidase 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Broad expression in testis adult (RPKM 4.2), CNS E18 (RPKM 1.2) and 21 other tissues See more
Orthologs
human all
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Genomic context

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See Agbl3 in Genome Data Viewer
Location:
6 B1; 6 15.13 cM
Exon count:
21
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (34755249..34837874)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (34780432..34860939)

Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene caldesmon 1 Neighboring gene predicted gene 13861 Neighboring gene STARR-seq mESC enhancer starr_15542 Neighboring gene predicted gene, 38787 Neighboring gene ribosomal protein L7A pseudogene Neighboring gene predicted gene, 46957 Neighboring gene transmembrane protein 140 Neighboring gene cell cycle regulator of NHEJ Neighboring gene STARR-positive B cell enhancer mm9_chr6:34860831-34861132 Neighboring gene WD repeat domain 91

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. The carboxypeptidase-like substrate-binding site in Nna1 is essential for the rescue of the Purkinje cell degeneration (pcd) phenotype. Wang T, et al. Mol Cell Neurosci, 2006 Oct. PMID 16952463
  2. A novel subfamily of mouse cytosolic carboxypeptidases. Kalinina E, et al. FASEB J, 2007 Mar. PMID 17244818
  3. IL-7Rα glutamylation and activation of transcription factor Sall3 promote group 3 ILC development. Liu B, et al. Nat Commun, 2017 Aug 10. PMID 28794449, Free PMC Article
  4. The cytosolic carboxypeptidases CCP2 and CCP3 catalyze posttranslational removal of acidic amino acids. Tort O, et al. Mol Biol Cell, 2014 Oct 1. PMID 25103237, Free PMC Article
  5. Glutamylation of the DNA sensor cGAS regulates its binding and synthase activity in antiviral immunity. Xia P, et al. Nat Immunol, 2016 Apr. PMID 26829768

See all (19) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. CCP2 and CCP3 are deglutamylases and are highly regulated proteins confined to ciliated tissues.
    Title: The cytosolic carboxypeptidases CCP2 and CCP3 catalyze posttranslational removal of acidic amino acids.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables metallocarboxypeptidase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables metallocarboxypeptidase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables metallocarboxypeptidase activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables metallocarboxypeptidase activity ISO
Inferred from Sequence Orthology
more info
  
enables metallocarboxypeptidase activity TAS
Traceable Author Statement
more info
  
enables tubulin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in protein side chain deglutamylation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in protein side chain deglutamylation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in protein side chain deglutamylation ISO
Inferred from Sequence Orthology
more info
  
involved_in proteolysis IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in centriole IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol TAS
Traceable Author Statement
more info
  
is_active_in microtubule cytoskeleton IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
cytosolic carboxypeptidase 3
Names
protein deglutamylase CCP3

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_001289656.1 → NP_001276585.1  cytosolic carboxypeptidase 3 isoform 1

    See identical proteins and their annotated locations for NP_001276585.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AC153869, AK029793, AK029798
    Consensus CDS
    CCDS80515.1
    UniProtKB/Swiss-Prot
    B2RSY8, Q09M06, Q09M07, Q8BSW4, Q8CDP0, Q8R036
    Related
    ENSMUSP00000110668.2, ENSMUST00000115016.8
    Conserved Domains (1) summary
    cd06907
    Location:315 → 576
    M14_AGBL2-3_like; Peptidase M14-like domain of ATP/GTP binding protein AGBL-2 and AGBL-3, and related proteins

  2. NM_001289657.1 → NP_001276586.1  cytosolic carboxypeptidase 3 isoform 3

    See identical proteins and their annotated locations for NP_001276586.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) contains multiple differences in the 5' region and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (3) has a shorter N-terminus than isoform 1.
    Source sequence(s)
    AC153627, AC153869, AK029793, AK029798
    UniProtKB/Swiss-Prot
    Q8CDP0
    Conserved Domains (1) summary
    cd06907
    Location:81 → 333
    M14_AGBL2-3_like; Peptidase M14-like domain of ATP/GTP binding protein AGBL-2 and AGBL-3, and related proteins

  3. NM_001289658.1 → NP_001276587.1  cytosolic carboxypeptidase 3 isoform 4

    See identical proteins and their annotated locations for NP_001276587.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks multiple 3' coding exons and its transcription extends past a splice site used in variant 1, resulting in a different 3' coding region and 3' UTR. The encoded isoform (4) has a distinct C-terminus and is shorter than isoform 1.
    Source sequence(s)
    AC153627, AK029793, BC028521
    Consensus CDS
    CCDS80516.1
    UniProtKB/Swiss-Prot
    Q8CDP0
    Related
    ENSMUSP00000110666.2, ENSMUST00000115014.8

  4. NM_178630.4 → NP_848745.2  cytosolic carboxypeptidase 3 isoform 2

    See identical proteins and their annotated locations for NP_848745.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AC153627, AC153869
    Consensus CDS
    CCDS19995.2
    UniProtKB/Swiss-Prot
    Q8CDP0
    Related
    ENSMUSP00000110669.2, ENSMUST00000115017.8
    Conserved Domains (2) summary
    cd06907
    Location:319 → 571
    M14_AGBL2-3_like; Peptidase M14-like domain of ATP/GTP binding protein AGBL-2 and AGBL-3, and related proteins
    pfam18027
    Location:171 → 297
    Pepdidase_M14_N; Cytosolic carboxypeptidase N-terminal domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000072.7 Reference GRCm39 C57BL/6J

    Range
    34755249..34837874
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030255658.2 → XP_030111518.1  cytosolic carboxypeptidase 3 isoform X1

    Conserved Domains (2) summary
    cd06907
    Location:319 → 571
    M14_AGBL2-3_like; Peptidase M14-like domain of ATP/GTP binding protein AGBL-2 and AGBL-3, and related proteins
    pfam18027
    Location:171 → 297
    Pepdidase_M14_N; Cytosolic carboxypeptidase N-terminal domain

  2. XM_006506731.5 → XP_006506794.1  cytosolic carboxypeptidase 3 isoform X2

    Conserved Domains (2) summary
    cd06907
    Location:307 → 559
    M14_AGBL2-3_like; Peptidase M14-like domain of ATP/GTP binding protein AGBL-2 and AGBL-3, and related proteins
    pfam18027
    Location:163 → 285
    Pepdidase_M14_N; Cytosolic carboxypeptidase N-terminal domain

  3. XM_006506734.5 → XP_006506797.1  cytosolic carboxypeptidase 3 isoform X4

    Conserved Domains (2) summary
    cd06907
    Location:319 → 571
    M14_AGBL2-3_like; Peptidase M14-like domain of ATP/GTP binding protein AGBL-2 and AGBL-3, and related proteins
    pfam18027
    Location:171 → 297
    Pepdidase_M14_N; Cytosolic carboxypeptidase N-terminal domain

  4. XM_030255660.2 → XP_030111520.1  cytosolic carboxypeptidase 3 isoform X6

    UniProtKB/TrEMBL
    D6RI59
    Related
    ENSMUSP00000118303.2, ENSMUST00000135304.8

  5. XM_030255659.2 → XP_030111519.1  cytosolic carboxypeptidase 3 isoform X5

  6. XM_030255661.2 → XP_030111521.1  cytosolic carboxypeptidase 3 isoform X7

  7. XM_011241501.2 → XP_011239803.1  cytosolic carboxypeptidase 3 isoform X3

    See identical proteins and their annotated locations for XP_011239803.1

    Conserved Domains (1) summary
    cd06907
    Location:81 → 333
    M14_AGBL2-3_like; Peptidase M14-like domain of ATP/GTP binding protein AGBL-2 and AGBL-3, and related proteins

RNA

  1. XR_377500.5 RNA Sequence

  2. XR_377501.5 RNA Sequence

  3. XR_004933646.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8CDP0.1 GenPept UniProtKB/Swiss-Prot:Q8CDP0

Gene LinkOut

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