Human Gene AGAP3 (ENST00000397238.7_7) from GENCODE V47lift37
  Description: ArfGAP with GTPase domain, ankyrin repeat and PH domain 3, transcript variant 1 (from RefSeq NM_031946.7)
Gencode Transcript: ENST00000397238.7_7
Gencode Gene: ENSG00000133612.20_12
Transcript (Including UTRs)
   Position: hg19 chr7:150,783,562-150,841,521 Size: 57,960 Total Exon Count: 18 Strand: +
Coding Region
   Position: hg19 chr7:150,783,829-150,841,030 Size: 57,202 Coding Exon Count: 18 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr7:150,783,562-150,841,521)mRNA (may differ from genome)Protein (911 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: AGAP3_HUMAN
DESCRIPTION: RecName: Full=Arf-GAP with GTPase, ANK repeat and PH domain-containing protein 3; Short=AGAP-3; AltName: Full=CRAM-associated GTPase; Short=CRAG; AltName: Full=Centaurin-gamma-3; Short=Cnt-g3; AltName: Full=MR1-interacting protein; Short=MRIP-1;
FUNCTION: GTPase-activating protein for the ADP ribosylation factor family (Potential). GTPase which may be involved in the degradation of expanded polyglutamine proteins through the ubiquitin-proteasome pathway.
ENZYME REGULATION: GTPase activity is stimulated by oxidative stress.
SUBUNIT: Interacts with PML. Interacts with expanded polyglutamine proteins.
SUBCELLULAR LOCATION: Cytoplasm. Note=In cells upon oxidative stress or in brains of Machado-Joseph disease patients, translocates to PML nuclear bodies.
TISSUE SPECIFICITY: Widely expressed.
SIMILARITY: Belongs to the centaurin gamma-like family.
SIMILARITY: Contains 3 ANK repeats.
SIMILARITY: Contains 1 Arf-GAP domain.
SIMILARITY: Contains 1 PH domain.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


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

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 63.86 RPKM in Brain - Cortex
Total median expression: 1045.23 RPKM



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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -147.40267-0.552 Picture PostScript Text
3' UTR -187.20491-0.381 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
IPR002110 - Ankyrin_rpt
IPR020683 - Ankyrin_rpt-contain_dom
IPR001164 - ArfGAP
IPR013684 - MIRO-like
IPR011993 - PH_like_dom
IPR001849 - Pleckstrin_homology
IPR020849 - Small_GTPase_Ras

Pfam Domains:
PF00071 - Ras family
PF01412 - Putative GTPase activating protein for Arf
PF12796 - Ankyrin repeats (3 copies)

SCOP Domains:
140860 - Pseudo ankyrin repeat-like
50729 - PH domain-like
52540 - P-loop containing nucleoside triphosphate hydrolases
48403 - Ankyrin repeat
57863 - ArfGap/RecO-like zinc finger

Protein Data Bank (PDB) 3-D Structure
MuPIT help
3IHW - X-ray


ModBase Predicted Comparative 3D Structure on Q96P47
FrontTopSide
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
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0003924 GTPase activity
GO:0005096 GTPase activator activity
GO:0005525 GTP binding
GO:0031593 polyubiquitin binding
GO:0046872 metal ion binding

Biological Process:
GO:0000060 protein import into nucleus, translocation
GO:0007165 signal transduction
GO:0034614 cellular response to reactive oxygen species
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process
GO:0043547 positive regulation of GTPase activity

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0016020 membrane
GO:0071944 cell periphery


-  Descriptions from all associated GenBank mRNAs
  AK055393 - Homo sapiens cDNA FLJ30831 fis, clone FEBRA2001989, highly similar to Centaurin-gamma 3.
JD056235 - Sequence 37259 from Patent EP1572962.
JD458527 - Sequence 439551 from Patent EP1572962.
AF359283 - Homo sapiens MRIP-1 mRNA, complete cds.
BC069236 - Homo sapiens ArfGAP with GTPase domain, ankyrin repeat and PH domain 3, mRNA (cDNA clone IMAGE:4876287).
AF413079 - Homo sapiens centaurin gamma3 mRNA, complete cds.
AB209781 - Homo sapiens mRNA for centaurin, gamma 3 variant protein.
BC044644 - Homo sapiens ArfGAP with GTPase domain, ankyrin repeat and PH domain 3, mRNA (cDNA clone MGC:52327 IMAGE:5453989), complete cds.
EU831533 - Synthetic construct Homo sapiens clone HAIB:100066562; DKFZo004D0518 centaurin, gamma 3 protein (CENTG3) gene, encodes complete protein.
EU831441 - Synthetic construct Homo sapiens clone HAIB:100066470; DKFZo008D0517 centaurin, gamma 3 protein (CENTG3) gene, encodes complete protein.
BC020426 - Homo sapiens ArfGAP with GTPase domain, ankyrin repeat and PH domain 3, mRNA (cDNA clone IMAGE:3857278).
AK096352 - Homo sapiens cDNA FLJ39033 fis, clone NT2RP7007842, weakly similar to Drosophila melanogaster Centaurin Gamma 1A (ceng1A) mRNA.
AK131236 - Homo sapiens cDNA FLJ16146 fis, clone BRAMY2040159, highly similar to Homo sapiens MRIP-1 mRNA.
BC048300 - Homo sapiens ArfGAP with GTPase domain, ankyrin repeat and PH domain 3, mRNA (cDNA clone IMAGE:5517750), partial cds.
BC037543 - Homo sapiens, Similar to centaurin, gamma 3, clone IMAGE:5183789, mRNA.
AK027415 - Homo sapiens cDNA FLJ14509 fis, clone NT2RM1000499, weakly similar to Caenorhabditis elegans mRNA for centaurin gamma 1A.
AL442089 - Homo sapiens mRNA; cDNA DKFZp761E2216 (from clone DKFZp761E2216).
JD130653 - Sequence 111677 from Patent EP1572962.
JD509608 - Sequence 490632 from Patent EP1572962.
JD445631 - Sequence 426655 from Patent EP1572962.
JD379421 - Sequence 360445 from Patent EP1572962.
JD185729 - Sequence 166753 from Patent EP1572962.
JD316704 - Sequence 297728 from Patent EP1572962.
JD205157 - Sequence 186181 from Patent EP1572962.
JD444456 - Sequence 425480 from Patent EP1572962.
JD343492 - Sequence 324516 from Patent EP1572962.
JD525564 - Sequence 506588 from Patent EP1572962.
JD130925 - Sequence 111949 from Patent EP1572962.
JD141959 - Sequence 122983 from Patent EP1572962.
JD158340 - Sequence 139364 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: AGAP3_HUMAN, B3KNZ8, CENTG3, E9PAL8, ENST00000397238.1, ENST00000397238.2, ENST00000397238.3, ENST00000397238.4, ENST00000397238.5, ENST00000397238.6, NM_031946, Q59EN0, Q96P47, Q96RK3, uc318yvu.1, uc318yvu.2
UCSC ID: ENST00000397238.7_7
RefSeq Accession: NM_031946.7
Protein: Q96P47 (aka AGAP3_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

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