Human Gene AGBL4 (ENST00000371839.6) from GENCODE V38
  Description: Homo sapiens ATP/GTP binding protein like 4 (AGBL4), transcript variant 5, non-coding RNA. (from RefSeq NR_136623)
Gencode Transcript: ENST00000371839.6
Gencode Gene: ENSG00000186094.17
Transcript (Including UTRs)
   Position: hg38 chr1:48,532,854-50,023,954 Size: 1,491,101 Total Exon Count: 14 Strand: -
Coding Region
   Position: hg38 chr1:48,534,173-50,023,796 Size: 1,489,624 Coding Exon Count: 14 

Page IndexSequence and LinksUniProtKB CommentsMalaCardsCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesMethods
Data last updated at UCSC: 2021-09-27 09:51:20

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr1:48,532,854-50,023,954)mRNA (may differ from genome)Protein (503 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaBioGPSCGAP
EnsemblEntrez GeneExonPrimerGeneCardsHGNCHPRD

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Cytosolic carboxypeptidase 6; EC=3.4.17.-; AltName: Full=ATP/GTP-binding protein-like 4;
FUNCTION: Metallocarboxypeptidase that mediates deglutamylation of target proteins. Catalyzes the deglutamylation of polyglutamate side chains generated by post-translational polyglutamylation in proteins such as tubulins. Also removes gene-encoded polyglutamates from the carboxy-terminus of target proteins such as MYLK. Acts as a long-chain deglutamylase and specifically shortens long polyglutamate chains, while it is not able to remove the branching point glutamate, a process catalyzed by AGBL5/CCP5 (By similarity).
COFACTOR: Binds 1 zinc ion per subunit (By similarity).
SUBUNIT: Interacts with MYLK (By similarity).
SUBCELLULAR LOCATION: Cytoplasm, cytosol (By similarity).
SIMILARITY: Belongs to the peptidase M14 family.
SEQUENCE CAUTION: Sequence=BAG52938.1; Type=Frameshift; Positions=501; Sequence=BAG57648.1; Type=Frameshift; Positions=501;

-  MalaCards Disease Associations
  MalaCards Gene Search: AGBL4
Diseases sorted by gene-association score: macular degeneration, age-related, 1 (1)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 1.41 RPKM in Brain - Frontal Cortex (BA9)
Total median expression: 9.17 RPKM

View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -53.80158-0.341 Picture PostScript Text
3' UTR -378.201319-0.287 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000834 - Peptidase_M14

Pfam Domains:
PF00246 - Zinc carboxypeptidase

ModBase Predicted Comparative 3D Structure on Q5VU57
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologGenome BrowserGenome BrowserNo ortholog
Gene Details     
Gene Sorter     
Protein SequenceProtein Sequence Protein SequenceProtein Sequence 
AlignmentAlignment AlignmentAlignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004180 carboxypeptidase activity
GO:0004181 metallocarboxypeptidase activity
GO:0008233 peptidase activity
GO:0008237 metallopeptidase activity
GO:0008270 zinc ion binding
GO:0015631 tubulin binding
GO:0016787 hydrolase activity
GO:0046872 metal ion binding

Biological Process:
GO:0006508 proteolysis
GO:0035608 protein deglutamylation
GO:0035609 C-terminal protein deglutamylation
GO:0035610 protein side chain deglutamylation
GO:0051607 defense response to virus

Cellular Component:
GO:0005737 cytoplasm
GO:0005794 Golgi apparatus
GO:0005814 centriole
GO:0005829 cytosol
GO:0005856 cytoskeleton
GO:0036064 ciliary basal body
GO:0042995 cell projection

-  Descriptions from all associated GenBank mRNAs
  AK094826 - Homo sapiens cDNA FLJ37507 fis, clone BRAWH2018206, weakly similar to Homo sapiens ATP/GTP binding protein-like 2 (AGBL2), mRNA.
AK294633 - Homo sapiens cDNA FLJ60499 complete cds.
AK294394 - Homo sapiens cDNA FLJ53507 complete cds, weakly similar to Homo sapiens ATP/GTP binding protein-like 2 (AGBL2), mRNA.
AK296221 - Homo sapiens cDNA FLJ56815 complete cds, weakly similar to Mus musculus ATP/GTP binding protein-like 3 (Agbl3), mRNA.
BC035739 - Homo sapiens ATP/GTP binding protein-like 4, mRNA (cDNA clone IMAGE:5741932), with apparent retained intron.
AK027348 - Homo sapiens cDNA FLJ14442 fis, clone HEMBB1001126.
BC144171 - Homo sapiens cDNA clone IMAGE:9052691.
BC126383 - Homo sapiens ATP/GTP binding protein-like 4, mRNA (cDNA clone MGC:161661 IMAGE:8992099), complete cds.
KJ903473 - Synthetic construct Homo sapiens clone ccsbBroadEn_12867 AGBL4 gene, encodes complete protein.
HQ258373 - Synthetic construct Homo sapiens clone IMAGE:100072802 Unknown protein gene, encodes complete protein.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q5VU57 (Reactome details) participates in the following event(s):

R-HSA-8866105 CCPs deglutamylate tubulin
R-HSA-8955332 Carboxyterminal post-translational modifications of tubulin
R-HSA-597592 Post-translational protein modification
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: B3KT26, B4DG37, CBPC6_HUMAN, CCP6, ENST00000371839.1, ENST00000371839.2, ENST00000371839.3, ENST00000371839.4, ENST00000371839.5, NR_136623, Q5VU57, uc001cru.1, uc001cru.2, uc001cru.3, uc001cru.4
UCSC ID: ENST00000371839.6
RefSeq Accession: NM_032785
Protein: Q5VU57 (aka CBPC6_HUMAN)
CCDS: CCDS44137.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.