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AGBL4 AGBL carboxypeptidase 4 [ Homo sapiens (human) ]

Gene ID: 84871, updated on 25-Jan-2022

Summary

Official Symbol
AGBL4provided by HGNC
Official Full Name
AGBL carboxypeptidase 4provided by HGNC
Primary source
HGNC:HGNC:25892
See related
Ensembl:ENSG00000186094 MIM:616476; AllianceGenome:HGNC:25892
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CCP6
Summary
Predicted to enable metallocarboxypeptidase activity and tubulin binding activity. Predicted to be involved in C-terminal protein deglutamylation; defense response to virus; and protein side chain deglutamylation. Predicted to act upstream of or within several processes, including axonal transport of mitochondrion; positive regulation of ubiquitin-dependent protein catabolic process; and regulation of blastocyst development. Located in Golgi apparatus; centriole; and ciliary basal body. [provided by Alliance of Genome Resources, Nov 2021]
Expression
Low expression observed in reference dataset See more
Orthologs
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Genomic context

See AGBL4 in Genome Data Viewer
Location:
1p33
Exon count:
20
Annotation release Status Assembly Chr Location
109.20211119 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (48520157..50023954, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (48998526..50489626, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene Sharpr-MPRA regulatory region 6906 Neighboring gene ribosomal protein L21 pseudogene 25 Neighboring gene BEN domain containing 5 Neighboring gene uncharacterized LOC105378706 Neighboring gene AGBL4 antisense RNA 1 Neighboring gene AGBL4 intronic transcript 1 Neighboring gene uncharacterized LOC107984954 Neighboring gene zinc finger protein 859, pseudogene Neighboring gene uncharacterized LOC105378708 Neighboring gene uncharacterized LOC105378709 Neighboring gene MT-ND2 pseudogene 29 Neighboring gene ELAV like RNA binding protein 4

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?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ14442

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables metallocarboxypeptidase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables tubulin binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in C-terminal protein deglutamylation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in anterograde axonal transport of mitochondrion IEA
Inferred from Electronic Annotation
more info
 
involved_in central nervous system neuron development IEA
Inferred from Electronic Annotation
more info
 
involved_in defense response to virus ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of cell population proliferation IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of ubiquitin-dependent protein catabolic process IEA
Inferred from Electronic Annotation
more info
 
involved_in protein deglutamylation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in protein side chain deglutamylation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in proteolysis IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of blastocyst development IEA
Inferred from Electronic Annotation
more info
 
involved_in retrograde axonal transport of mitochondrion IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in Golgi apparatus IDA
Inferred from Direct Assay
more info
PubMed 
located_in axon cytoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in centriole IDA
Inferred from Direct Assay
more info
PubMed 
located_in ciliary basal body IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytosol ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
cytosolic carboxypeptidase 6
Names
ATP/GTP binding protein like 4
protein deglutamylase CCP6
NP_001310502.1
NP_001310503.1
NP_001310504.1
NP_116174.3
XP_011540610.1
XP_011540612.1
XP_016858084.1
XP_016858085.1
XP_016858086.1
XP_016858087.1
XP_024306167.1

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_001323573.2NP_001310502.1  cytosolic carboxypeptidase 6 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC099788, AL355809, AL390023, AL391844, AL590432, AL591602, AL645507, AL645730
    UniProtKB/Swiss-Prot
    Q5VU57
    Conserved Domains (1) summary
    cd06908
    Location:190450
    M14_AGBL4_like; Peptidase M14-like domain of ATP/GTP binding protein AGBL-4 and related proteins
  2. NM_001323574.2NP_001310503.1  cytosolic carboxypeptidase 6 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC099788, AL355809, AL390023, AL391844, AL590432, AL591602, AL645507, AL645730
  3. NM_001323575.2NP_001310504.1  cytosolic carboxypeptidase 6 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC099788, AL355809, AL390023, AL391844, AL590432, AL591602, AL645507, AL645730
    Conserved Domains (2) summary
    cd06908
    Location:178438
    M14_AGBL4_like; Peptidase M14-like domain of ATP/GTP binding protein AGBL-4 and related proteins
    COG2866
    Location:48450
    MpaA; Murein tripeptide amidase MpaA [Cell wall/membrane/envelope biogenesis]
  4. NM_032785.4NP_116174.3  cytosolic carboxypeptidase 6 isoform 1

    See identical proteins and their annotated locations for NP_116174.3

    Status: VALIDATED

    Source sequence(s)
    AC099788, AL355809, AL390023, AL391844, AL590432, AL591602, AL645507, AL645730
    Consensus CDS
    CCDS44137.1
    UniProtKB/Swiss-Prot
    Q5VU57
    Related
    ENSP00000360905.1, ENST00000371839.6
    Conserved Domains (2) summary
    cd06908
    Location:178438
    M14_AGBL4_like; Peptidase M14-like domain of ATP/GTP binding protein AGBL-4 and related proteins
    COG2866
    Location:48450
    MpaA; Murein tripeptide amidase MpaA [Cell wall/membrane/envelope biogenesis]

RNA

  1. NR_136623.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC097062, AC099788, AL355809, AL391844, AL590432, AL591602, AL645507, AL645730

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20211119

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    48520157..50023954 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017002595.2XP_016858084.1  cytosolic carboxypeptidase 6 isoform X2

  2. XM_011542308.2XP_011540610.1  cytosolic carboxypeptidase 6 isoform X1

    Conserved Domains (1) summary
    cd06908
    Location:190475
    M14_AGBL4_like; Peptidase M14-like domain of ATP/GTP binding protein AGBL-4 and related proteins
  3. XM_017002597.2XP_016858086.1  cytosolic carboxypeptidase 6 isoform X4

  4. XM_017002596.2XP_016858085.1  cytosolic carboxypeptidase 6 isoform X3

  5. XM_024450399.1XP_024306167.1  cytosolic carboxypeptidase 6 isoform X7

    Related
    ENSP00000360902.1, ENST00000371836.1
    Conserved Domains (1) summary
    cl11393
    Location:190227
    Peptidase_M14_like; M14 family of metallocarboxypeptidases and related proteins
  6. XM_011542310.2XP_011540612.1  cytosolic carboxypeptidase 6 isoform X5

    Conserved Domains (1) summary
    cl11393
    Location:190225
    Peptidase_M14_like; M14 family of metallocarboxypeptidases and related proteins
  7. XM_017002598.2XP_016858087.1  cytosolic carboxypeptidase 6 isoform X6

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