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

    Gene ID: 76223, updated on 9-Dec-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, Dec 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
    • 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

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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