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Tbio
GAPVD1
GTPase-activating protein and VPS9 domain-containing protein 1

Protein Summary
Description
Acts both as a GTPase-activating protein (GAP) and a guanine nucleotide exchange factor (GEF), and participates in various processes such as endocytosis, insulin receptor internalization or LC2A4/GLUT4 trafficking. Acts as a GEF for the Ras-related protein RAB31 by exchanging bound GDP for free GTP, leading to regulate LC2A4/GLUT4 trafficking. In the absence of insulin, it maintains RAB31 in an active state and promotes a futile cycle between LC2A4/GLUT4 storage vesicles and early endosomes, retaining LC2A4/GLUT4 inside the cells. Upon insulin stimulation, it is translocated to the plasma membrane, releasing LC2A4/GLUT4 from intracellular storage vesicles. Also involved in EGFR trafficking and degradation, possibly by promoting EGFR ubiquitination and subsequent degradation by the proteasome. Has GEF activity for Rab5 and GAP activity for Ras.
Uniprot Accession IDs
Gene Name
Ensembl ID
  • ENST00000297933
  • ENSP00000297933
  • ENSG00000165219
  • ENST00000312123
  • ENSP00000309582
  • ENST00000394104
  • ENSP00000377664
  • ENST00000394105
  • ENSP00000377665
  • ENST00000470056
  • ENSP00000419767
  • ENST00000495955
  • ENSP00000419063

Symbol
  • GAPEX5
  • KIAA1521
  • RAP6
  • RAP6
  • GAPEX5
  • GAPex-5
Illumination Graph
Knowledge Table
Most Knowledge About
Knowledge Value (0 to 1 scale)
virus perturbation
0.98
kinase perturbation
0.96
disease perturbation
0.95
protein complex
0.87
histone modification site profile
0.86


Related Tools
Target Illumination GWAS Analytics (TIGA)
TIGA scores and ranks GWAS discovered associations according to the quantity and quality of the evidence supporting the association.
GENEVA
GENEVA (GENe Expression Variance Analysis) allows you to identify RNA-sequencing datasets from the Gene Expression Omnibus (GEO) that contain conditions modulating a gene or a gene signature.
GlyGen
GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.
ARCHS4
ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.
IDG Development Level Summary
Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 7.46   (req: < 5)
Gene RIFs: 2   (req: <= 3)
Antibodies: 88   (req: <= 50)
Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 7.46   (req: >= 5)
Gene RIFs: 2   (req: > 3)
Antibodies: 88   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 9
Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligand: 0
Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0
GWAS Traits (5)
GWAS Trait
EFO ID
Study Count
SNP Count
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
smoking status measurement
2
2
1
1
70.3
appendicular lean mass
1
1
1
15.6
smoking initiation
1
1
1
3.6
smoking behavior
1
1
1
3
worry measurement
1
1
0
5.5
1
GWAS Trait
EFO ID
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
smoking status measurement
1
1
70.3
appendicular lean mass
1
15.6
smoking initiation
1
3.6
smoking behavior
1
3
worry measurement
0
5.5
1
Orthologs (13)
1 – 5 of 13
Species
Name
Source ID
Gene ID
OMA
EggNOG
Inparanoid
Mouse
MGI:1913941
66691
Rat
RGD:1307479
311880
Dog
GTPase activating protein and VPS9 domains 1
VGNC:41110
480725
Horse
GTPase activating protein and VPS9 domains 1
VGNC:18244
100070862
Cow
GTPase activating protein and VPS9 domains 1
VGNC:29250
539646
Species
Name
OMA
EggNOG
Inparanoid
Mouse
Rat
Dog
GTPase activating protein and VPS9 domains 1
Horse
GTPase activating protein and VPS9 domains 1
Cow
GTPase activating protein and VPS9 domains 1
Protein Structure (0 Structures, 1 AlphaFold Model)
RepresentationColor Scheme
AF-Q14C86-F1-model_v1

AlphaFold Structures Developed by DeepMind and EMBL-EBI

Pathways (5)
Clathrin-mediated endocytosis (R-HSA-8856828)

Click on a row in the table to change the structure displayed.

Items per page:
1 – 5 of 5
Data Source
Name
Explore in Pharos
Explore in Source
Reactome
Clathrin-mediated endocytosis
Reactome
Membrane Trafficking
Reactome
RAB GEFs exchange GTP for GDP on RABs
Reactome
Rab regulation of trafficking
Reactome
Vesicle-mediated transport
Name
Explore in Pharos
Explore in Source
Clathrin-mediated endocytosis
Membrane Trafficking
RAB GEFs exchange GTP for GDP on RABs
Rab regulation of trafficking
Vesicle-mediated transport
Gene Ontology Terms (12)
Items per page:
10
1 – 5 of 5
GO Term
Evidence
Assigned by
Inferred from Mutant Phenotype (IMP)
UniProtKB
Inferred from Mutant Phenotype (IMP)
UniProtKB
Inferred from High Throughput Direct Assay (HDA)
BHF-UCL
Traceable Author Statement (TAS)
Reactome
Inferred from Electronic Annotation (IEA)
UniProtKB-KW
Protein-Protein Interactions (188)
1 – 10 of 188
SNX24
Tdark
Novelty: 0.20838126
p_int: 0.99999995
p_ni: 5e-8
Score: 0.866
Data Source: BioPlex,STRINGDB
FGFR2
Tclin
Family: Kinase
Novelty: 0.00066613
p_int: 0.999998428
p_ni: 0.000001572
Score: 0.173
Data Source: BioPlex,STRINGDB
CSNK1E
Tchem
Family: Kinase
Novelty: 0.00891859
p_int: 0.999997442
p_ni: 0.000002558
Score: 0.654
Data Source: BioPlex,STRINGDB
CSNK1D
Tchem
Family: Kinase
Novelty: 0.00896935
p_int: 0.999986531
p_ni: 0.000013469
p_wrong: 1e-9
Score: 0.614
Data Source: BioPlex,STRINGDB
SPATA46
Tdark
Novelty: 0.327066
p_int: 0.999945558
p_ni: 0.000054442
Score: 0.823
Data Source: BioPlex,STRINGDB
CSNK1A1
Tchem
Family: Kinase
Novelty: 0.00636472
p_int: 0.999902293
p_ni: 0.000097707
Score: 0.804
Data Source: BioPlex,STRINGDB
TSSK1B
Tchem
Family: Kinase
Novelty: 0.01931035
p_int: 0.968268304
p_ni: 0.031731694
p_wrong: 1e-9
Score: 0.729
Data Source: BioPlex,STRINGDB
THRSP
Tbio
Novelty: 0.00938864
p_int: 0.787545112
p_ni: 0.212454888
Data Source: BioPlex
MICU2
Tbio
Novelty: 0.04146208
p_int: 0.775491595
p_ni: 0.224508405
Score: 0.563
Data Source: BioPlex,STRINGDB
RAB31
Tbio
Family: Enzyme
Novelty: 0.03673084
Score: 0.979
Data Source: Reactome,STRINGDB
Publication Statistics
PubMed Score  7.46

PubMed score by year
PubTator Score  7.01

PubTator score by year
Amino Acid Sequence
Residue Counts
Protein Sequence
ProtVista Viewer
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