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    Agbl5 ATP/GTP binding protein-like 5 [ Mus musculus (house mouse) ]

    Gene ID: 231093, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Agbl5provided by MGI
    Official Full Name
    ATP/GTP binding protein-like 5provided by MGI
    Primary source
    MGI:MGI:2441745
    See related
    Ensembl:ENSMUSG00000029165 AllianceGenome:MGI:2441745
    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
    CCP5; 9430057O19Rik
    Summary
    Enables metallocarboxypeptidase activity and tubulin binding activity. Involved in defense response to virus and protein deglutamylation. Located in cytosol and nucleus. Is expressed in 1-cell stage embryo and 8-cell stage embryo. Human ortholog(s) of this gene implicated in retinitis pigmentosa 75. Orthologous to human AGBL5 (AGBL carboxypeptidase 5). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in testis adult (RPKM 119.1), limb E14.5 (RPKM 12.0) and 6 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Agbl5 in Genome Data Viewer
    Location:
    5 B1; 5 16.9 cM
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (31045321..31064008)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (30888639..30906666)

    Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene microtubule-associated protein, RP/EB family, member 3 Neighboring gene STARR-positive B cell enhancer ABC_E10311 Neighboring gene STARR-seq mESC enhancer starr_12763 Neighboring gene transmembrane protein 214 Neighboring gene nuclear encoded tRNA alanine 15 (anticodon AGC) Neighboring gene predicted gene, 35795 Neighboring gene nuclear encoded tRNA tyrosine 9 (anticodon GTA) Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:31218364-31218473 Neighboring gene oligosaccharyltransferase complex subunit 4 (non-catalytic) Neighboring gene elastin microfibril interfacer 1 Neighboring gene STARR-positive B cell enhancer ABC_E4749 Neighboring gene ketohexokinase

    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. Excessive tubulin glutamylation leads to progressive cone-rod dystrophy and loss of outer segment integrity. Aljammal R, et al. Hum Mol Genet, 2024 Apr 18. PMID 38297980
    2. Loss of the deglutamylase CCP5 perturbs multiple steps of spermatogenesis and leads to male infertility. Giordano T, et al. J Cell Sci, 2019 Feb 7. PMID 30635446
    3. Role of Cytosolic Carboxypeptidase 5 in Neuronal Survival and Spermatogenesis. Wu HY, et al. Sci Rep, 2017 Jan 27. PMID 28128286, Free PMC Article
    4. Cytosolic carboxypeptidase 5 removes α- and γ-linked glutamates from tubulin. Berezniuk I, et al. J Biol Chem, 2013 Oct 18. PMID 24022482, Free PMC Article
    5. Identification of tubulin deglutamylase among Caenorhabditis elegans and mammalian cytosolic carboxypeptidases (CCPs). Kimura Y, et al. J Biol Chem, 2010 Jul 23. PMID 20519502, Free PMC Article

    See all (26) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Loss of the deglutamylase CCP5 perturbs multiple steps of spermatogenesis and leads to male infertility.
      Title: Loss of the deglutamylase CCP5 perturbs multiple steps of spermatogenesis and leads to male infertility.
    2. Nna1 and CCP5 do not work coordinately in the same pathway in either the nervous system or spermatogenesis.
      Title: Role of Cytosolic Carboxypeptidase 5 in Neuronal Survival and Spermatogenesis.
    3. CCP5 functions as a dual-functional deglutamylase cleaving both alpha- and gamma-linked glutamate from tubulin.
      Title: Cytosolic carboxypeptidase 5 removes α- and γ-linked glutamates from tubulin.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

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

    General gene information

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    Markers

    Homology

    Clone Names

    • 4930455N08

    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 TAS
    Traceable Author Statement
    more info
    		  
    enables tubulin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables tubulin binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in C-terminal protein deglutamylation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in defense response to virus IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in protein branching point deglutamylation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in protein branching point deglutamylation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in protein deglutamylation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in protein deglutamylation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in protein side chain deglutamylation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in proteolysis IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol TAS
    Traceable Author Statement
    more info
    		  
    located_in intercellular bridge IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in intercellular bridge ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in microtubule cytoskeleton IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in microtubule cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in midbody ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in midbody ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in mitotic spindle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in mitotic spindle ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    cytosolic carboxypeptidase-like protein 5
    Names
    carboxypeptidase 5, cytosolic
    protein deglutamylase CCP5
    NP_001041657.1
    NP_001281191.1
    NP_001361666.1
    NP_001395007.1
    NP_001395008.1
    NP_001395009.1
    NP_001395010.1
    NP_001395011.1
    NP_001395012.1
    NP_001395013.1
    NP_001395014.1
    NP_001395015.1
    NP_001395016.1
    NP_777274.1
    XP_006503930.3
    XP_006503931.3
    XP_006503933.1
    XP_006503934.1
    XP_006503935.1
    XP_006503936.3
    XP_006503938.1
    XP_006503939.1
    XP_006503940.1
    XP_036020907.1
    XP_036020908.1
    XP_036020909.1
    XP_036020910.1
    XP_036020911.1

    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.

    mRNA and Protein(s)

    1. NM_001048192.3 → NP_001041657.1  cytosolic carboxypeptidase-like protein 5 isoform 3

      See identical proteins and their annotated locations for NP_001041657.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) encodes the longest isoform (3).
      Source sequence(s)
      AC109606
      Consensus CDS
      CCDS39048.1
      UniProtKB/Swiss-Prot
      Q09M02
      Related
      ENSMUSP00000110348.3, ENSMUST00000114700.9
      Conserved Domains (2) summary
      cd06236
      Location:212 → 603
      M14_AGBL5_like; Peptidase M14-like domain of ATP/GTP binding protein (AGBL)-5 and related proteins
      pfam18027
      Location:10 → 122
      Pepdidase_M14_N; Cytosolic carboxypeptidase N-terminal domain

    2. NM_001294262.2 → NP_001281191.1  cytosolic carboxypeptidase-like protein 5 isoform 6

      See identical proteins and their annotated locations for NP_001281191.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) contains a 3' terminal exon that extends past a splice site that is used in variant 3. This results in a novel 3' coding region and 3' UTR, compared to variant 3. It encodes isoform 6 which is shorter and has a distinct C-terminus, compared to isoform 3.
      Source sequence(s)
      AC109606
      Consensus CDS
      CCDS80242.1
      UniProtKB/Swiss-Prot
      Q09M02
      Related
      ENSMUSP00000144018.2, ENSMUST00000202060.4
      Conserved Domains (1) summary
      cd06236
      Location:176 → 568
      M14_AGBL5_like; Peptidase M14-like domain of ATP/GTP binding protein (AGBL)-5 and related proteins

    3. NM_001374737.2 → NP_001361666.1  cytosolic carboxypeptidase-like protein 5 isoform 7

      Status: VALIDATED

      Source sequence(s)
      AC109606
      Consensus CDS
      CCDS89898.1
      Related
      ENSMUSP00000144188.2, ENSMUST00000201917.4
      Conserved Domains (2) summary
      cd06236
      Location:183 → 574
      M14_AGBL5_like; Peptidase M14-like domain of ATP/GTP binding protein (AGBL)-5 and related proteins
      pfam18027
      Location:10 → 155
      Pepdidase_M14_N; Cytosolic carboxypeptidase N-terminal domain

    4. NM_001408078.1 → NP_001395007.1  cytosolic carboxypeptidase-like protein 5 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC109606

    5. NM_001408079.1 → NP_001395008.1  cytosolic carboxypeptidase-like protein 5 isoform 8

      Status: VALIDATED

      Source sequence(s)
      AC109606

    6. NM_001408080.1 → NP_001395009.1  cytosolic carboxypeptidase-like protein 5 isoform 9

      Status: VALIDATED

      Source sequence(s)
      AC109606

    7. NM_001408081.1 → NP_001395010.1  cytosolic carboxypeptidase-like protein 5 isoform 6

      Status: VALIDATED

      Source sequence(s)
      AC109606
      Related
      ENSMUSP00000143934.2, ENSMUST00000201225.4

    8. NM_001408082.1 → NP_001395011.1  cytosolic carboxypeptidase-like protein 5 isoform 10

      Status: VALIDATED

      Source sequence(s)
      AC109606

    9. NM_001408083.1 → NP_001395012.1  cytosolic carboxypeptidase-like protein 5 isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC109606
      Related
      ENSMUST00000201918.4

    10. NM_001408084.1 → NP_001395013.1  cytosolic carboxypeptidase-like protein 5 isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC109606

    11. NM_001408085.1 → NP_001395014.1  cytosolic carboxypeptidase-like protein 5 isoform 11

      Status: VALIDATED

      Source sequence(s)
      AC109606

    12. NM_001408086.1 → NP_001395015.1  cytosolic carboxypeptidase-like protein 5 isoform 12

      Status: VALIDATED

      Source sequence(s)
      AC109606

    13. NM_001408087.1 → NP_001395016.1  cytosolic carboxypeptidase-like protein 5 isoform 12

      Status: VALIDATED

      Source sequence(s)
      AC109606

    14. NM_174849.4 → NP_777274.1  cytosolic carboxypeptidase-like protein 5 isoform 5

      See identical proteins and their annotated locations for NP_777274.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) has multiple differences, compared to variant 3. The resulting protein (isoform 5), has a shorter and distinct C-terminus when it is compared to isoform 3.
      Source sequence(s)
      AC109606
      Consensus CDS
      CCDS19165.1
      UniProtKB/Swiss-Prot
      Q09M02
      Related
      ENSMUSP00000063228.5, ENSMUST00000069705.11
      Conserved Domains (1) summary
      cd06236
      Location:176 → 568
      M14_AGBL5_like; Peptidase M14-like domain of ATP/GTP binding protein (AGBL)-5 and related proteins

    RNA

    1. NR_122116.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (7) lacks an alternate internal exon and uses an alternate splice site in an internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 3, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC109606
      Related
      ENSMUST00000201817.4

    2. NR_122117.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (8) lacks an alternate internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 3, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC109606
      Related
      ENSMUST00000202757.4

    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_000071.7 Reference GRCm39 C57BL/6J

      Range
      31045321..31064008
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036165015.1 → XP_036020908.1  cytosolic carboxypeptidase-like protein 5 isoform X4

      Conserved Domains (2) summary
      cd06236
      Location:304 → 695
      M14_AGBL5_like; Peptidase M14-like domain of ATP/GTP binding protein (AGBL)-5 and related proteins
      pfam18027
      Location:102 → 214
      Pepdidase_M14_N; Cytosolic carboxypeptidase N-terminal domain

    2. XM_006503868.5 → XP_006503931.3  cytosolic carboxypeptidase-like protein 5 isoform X3

      Conserved Domains (2) summary
      cd06236
      Location:304 → 695
      M14_AGBL5_like; Peptidase M14-like domain of ATP/GTP binding protein (AGBL)-5 and related proteins
      pfam18027
      Location:102 → 214
      Pepdidase_M14_N; Cytosolic carboxypeptidase N-terminal domain

    3. XM_036165014.1 → XP_036020907.1  cytosolic carboxypeptidase-like protein 5 isoform X1

      Conserved Domains (2) summary
      cd06236
      Location:304 → 695
      M14_AGBL5_like; Peptidase M14-like domain of ATP/GTP binding protein (AGBL)-5 and related proteins
      pfam18027
      Location:102 → 214
      Pepdidase_M14_N; Cytosolic carboxypeptidase N-terminal domain

    4. XM_036165018.1 → XP_036020911.1  cytosolic carboxypeptidase-like protein 5 isoform X10

      Conserved Domains (2) summary
      cd06236
      Location:275 → 666
      M14_AGBL5_like; Peptidase M14-like domain of ATP/GTP binding protein (AGBL)-5 and related proteins
      pfam18027
      Location:102 → 247
      Pepdidase_M14_N; Cytosolic carboxypeptidase N-terminal domain

    5. XM_036165016.1 → XP_036020909.1  cytosolic carboxypeptidase-like protein 5 isoform X7

      Conserved Domains (2) summary
      cd06236
      Location:275 → 666
      M14_AGBL5_like; Peptidase M14-like domain of ATP/GTP binding protein (AGBL)-5 and related proteins
      pfam18027
      Location:102 → 247
      Pepdidase_M14_N; Cytosolic carboxypeptidase N-terminal domain

    6. XM_006503873.5 → XP_006503936.3  cytosolic carboxypeptidase-like protein 5 isoform X6

      Conserved Domains (2) summary
      cd06236
      Location:275 → 666
      M14_AGBL5_like; Peptidase M14-like domain of ATP/GTP binding protein (AGBL)-5 and related proteins
      pfam18027
      Location:102 → 247
      Pepdidase_M14_N; Cytosolic carboxypeptidase N-terminal domain

    7. XM_006503867.5 → XP_006503930.3  cytosolic carboxypeptidase-like protein 5 isoform X2

      Conserved Domains (2) summary
      cd06236
      Location:275 → 666
      M14_AGBL5_like; Peptidase M14-like domain of ATP/GTP binding protein (AGBL)-5 and related proteins
      pfam18027
      Location:102 → 247
      Pepdidase_M14_N; Cytosolic carboxypeptidase N-terminal domain

    8. XM_006503877.3 → XP_006503940.1  cytosolic carboxypeptidase-like protein 5 isoform X8

      See identical proteins and their annotated locations for XP_006503940.1

      UniProtKB/Swiss-Prot
      D3Z6S8, Q09M01, Q09M02, Q09M03, Q09M04, Q6PFZ3, Q8BLL9, Q8BM52, Q8BZD8, Q8C0W4
      Conserved Domains (2) summary
      cd06236
      Location:183 → 574
      M14_AGBL5_like; Peptidase M14-like domain of ATP/GTP binding protein (AGBL)-5 and related proteins
      pfam18027
      Location:10 → 155
      Pepdidase_M14_N; Cytosolic carboxypeptidase N-terminal domain

    9. XM_006503872.3 → XP_006503935.1  cytosolic carboxypeptidase-like protein 5 isoform X5

      See identical proteins and their annotated locations for XP_006503935.1

      Conserved Domains (2) summary
      cd06236
      Location:212 → 603
      M14_AGBL5_like; Peptidase M14-like domain of ATP/GTP binding protein (AGBL)-5 and related proteins
      pfam18027
      Location:10 → 122
      Pepdidase_M14_N; Cytosolic carboxypeptidase N-terminal domain

    10. XM_006503871.3 → XP_006503934.1  cytosolic carboxypeptidase-like protein 5 isoform X5

      See identical proteins and their annotated locations for XP_006503934.1

      Conserved Domains (2) summary
      cd06236
      Location:212 → 603
      M14_AGBL5_like; Peptidase M14-like domain of ATP/GTP binding protein (AGBL)-5 and related proteins
      pfam18027
      Location:10 → 122
      Pepdidase_M14_N; Cytosolic carboxypeptidase N-terminal domain

    11. XM_006503875.3 → XP_006503938.1  cytosolic carboxypeptidase-like protein 5 isoform X8

      See identical proteins and their annotated locations for XP_006503938.1

      UniProtKB/Swiss-Prot
      D3Z6S8, Q09M01, Q09M02, Q09M03, Q09M04, Q6PFZ3, Q8BLL9, Q8BM52, Q8BZD8, Q8C0W4
      Conserved Domains (2) summary
      cd06236
      Location:183 → 574
      M14_AGBL5_like; Peptidase M14-like domain of ATP/GTP binding protein (AGBL)-5 and related proteins
      pfam18027
      Location:10 → 155
      Pepdidase_M14_N; Cytosolic carboxypeptidase N-terminal domain

    12. XM_006503876.3 → XP_006503939.1  cytosolic carboxypeptidase-like protein 5 isoform X8

      See identical proteins and their annotated locations for XP_006503939.1

      UniProtKB/Swiss-Prot
      D3Z6S8, Q09M01, Q09M02, Q09M03, Q09M04, Q6PFZ3, Q8BLL9, Q8BM52, Q8BZD8, Q8C0W4
      Related
      ENSMUSP00000143808.2, ENSMUST00000201168.4
      Conserved Domains (2) summary
      cd06236
      Location:183 → 574
      M14_AGBL5_like; Peptidase M14-like domain of ATP/GTP binding protein (AGBL)-5 and related proteins
      pfam18027
      Location:10 → 155
      Pepdidase_M14_N; Cytosolic carboxypeptidase N-terminal domain

    13. XM_006503870.3 → XP_006503933.1  cytosolic carboxypeptidase-like protein 5 isoform X5

      See identical proteins and their annotated locations for XP_006503933.1

      Conserved Domains (2) summary
      cd06236
      Location:212 → 603
      M14_AGBL5_like; Peptidase M14-like domain of ATP/GTP binding protein (AGBL)-5 and related proteins
      pfam18027
      Location:10 → 122
      Pepdidase_M14_N; Cytosolic carboxypeptidase N-terminal domain

    14. XM_036165017.1 → XP_036020910.1  cytosolic carboxypeptidase-like protein 5 isoform X8

      UniProtKB/Swiss-Prot
      D3Z6S8, Q09M01, Q09M02, Q09M03, Q09M04, Q6PFZ3, Q8BLL9, Q8BM52, Q8BZD8, Q8C0W4
      Conserved Domains (2) summary
      cd06236
      Location:183 → 574
      M14_AGBL5_like; Peptidase M14-like domain of ATP/GTP binding protein (AGBL)-5 and related proteins
      pfam18027
      Location:10 → 155
      Pepdidase_M14_N; Cytosolic carboxypeptidase N-terminal domain

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001048190.1: Suppressed sequence

      Description
      NM_001048190.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.

    2. NM_001048191.1: Suppressed sequence

      Description
      NM_001048191.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q09M02.2 GenPept UniProtKB/Swiss-Prot:Q09M02

    Gene LinkOut

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

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