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Tbio
VPS39
Vam6/Vps39-like protein

Protein Summary
Description
Regulator of TGF-beta/activin signaling, inhibiting SMAD3- and activating SMAD2-dependent transcription. Acts by interfering with SMAD3/SMAD4 complex formation, this would lead to inhibition of SMAD3-dependent transcription and relieve SMAD3 inhibition of SMAD2-dependent promoters, thus increasing SMAD2-dependent transcription. Does not affect TGF-beta-induced SMAD2 or SMAD3 phosphorylation, nor SMAD2/SMAD4 complex formation. Plays a role in vesicle-mediated protein trafficking to lysosomal compartments including the endocytic membrane transport and autophagic pathways. Believed to act in part as a component of the putative HOPS endosomal tethering complex which is proposed to be involved in the Rab5-to-Rab7 endosome conversion probably implicating MON1A/B, and via binding SNAREs and SNARE complexes to mediate tethering and docking events during SNARE-mediated membrane fusion. The HOPS complex is proposed to be recruited to Rab7 on the late endosomal membrane and to regulate late endoc ...more
Uniprot Accession IDs
Gene Name
Ensembl ID
  • ENST00000318006
  • ENSP00000326534
  • ENSG00000166887
  • ENST00000348544
  • ENSP00000335193

Symbol
  • KIAA0770
  • TLP
  • VAM6
  • TLP
  • VAM6
  • hVam6p
Illumination Graph
Knowledge Table
Most Knowledge About
Knowledge Value (0 to 1 scale)
kinase perturbation
0.95
interacting protein
0.71
histone modification site profile
0.69
tissue sample
0.69
cell type or tissue
0.68


Protein Classes
No PANTHER Classes or DTO Classes found
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: 57.5   (req: < 5)
Gene RIFs: 8   (req: <= 3)
Antibodies: 90   (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: 57.5   (req: >= 5)
Gene RIFs: 8   (req: > 3)
Antibodies: 90   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 7
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
Protein Sequence and Structure
Residue Counts
Protein Sequence
ProtVista Viewer
Expression Data (0 Tissues)
No expression data found
Related Tools
Target Illumination GWAS Analytics (TIGA)
Thumbnail image for 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
Thumbnail image for 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
Thumbnail image for GlyGen
GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.
ARCHS4
Thumbnail image for ARCHS4
ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.
Approved Drugs (0)
No approved drugs found
Active Ligands (0)
No active ligands found
Protein-Protein Interactions (172)
VPS11
Tbio
Novelty:  0.00496411
p_int:  1
Score:  0.999
Data Source:  BioPlex,STRINGDB
RPS6KC1
Tdark
Family:  Kinase
Novelty:  0.33998272
p_int:  0.999999997
p_wrong:  3e-9
Score:  0.539
Data Source:  BioPlex,STRINGDB
ZNF263
Tbio
Family:  TF
Novelty:  0.098799
p_int:  0.999998422
p_ni:  0.000001577
p_wrong:  1e-9
Score:  0.169
Data Source:  BioPlex,STRINGDB
SPATA1
Tdark
p_int:  0.999947714
p_ni:  0.000052286
Data Source:  BioPlex
S100A4
Tchem
Novelty:  0.00136919
p_int:  0.999921425
p_ni:  0.000078575
Data Source:  BioPlex
USP54
Tdark
Family:  Enzyme
Novelty:  0.31344498
p_int:  0.999803689
p_ni:  0.00019631
Score:  0.202
Data Source:  BioPlex,STRINGDB
NPAT
Tbio
Novelty:  0.01063979
p_int:  0.998452712
p_ni:  0.001547288
Score:  0.187
Data Source:  BioPlex,STRINGDB
EPN3
Tbio
Novelty:  0.12685855
p_int:  0.99832117
p_ni:  0.001678828
p_wrong:  1e-9
Score:  0.269
Data Source:  BioPlex,STRINGDB
CHCHD4
Tbio
Novelty:  0.01204944
p_int:  0.984636926
p_ni:  0.002528759
p_wrong:  0.012834315
Data Source:  BioPlex
VPS18
Tbio
Novelty:  0.00726539
Score:  0.998
Data Source:  STRINGDB
Nearest Tclin Targets
Nearest Tclin calculations are only available for targets with KEGG Pathway annotations.
Viral Interactions (0)
No viral interactions found
Disease Associations ()
No disease associations found
GWAS Traits (3)
GWAS Trait
EFO ID
Study Count
SNP Count
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
basophil count
2
2
2
68.4
basophil percentage of leukocytes
1
1
1
59
fibrinogen measurement
1
1
1
33.1
GWAS Trait
EFO ID
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
basophil count
2
68.4
basophil percentage of leukocytes
1
59
fibrinogen measurement
1
33.1
Find similar targets by:
IDG Resources
No IDG generated resources found
Orthologs (14)
1 – 5 of 14
Species
Name
Source ID
Gene ID
OMA
EggNOG
Inparanoid
Chimp
VPS39, HOPS complex subunit
VGNC:2462
453358
Macaque
VPS39, HOPS complex subunit
707791
Mouse
MGI:2443189
269338
Rat
RGD:1304858
362199
Dog
VPS39, HOPS complex subunit
VGNC:48290
487516
Species
Name
OMA
EggNOG
Inparanoid
Chimp
VPS39, HOPS complex subunit
Macaque
VPS39, HOPS complex subunit
Mouse
Rat
Dog
VPS39, HOPS complex subunit
Publication Statistics
PubMed Score 57.50
PubMed score by year
PubTator Score 19.13
PubTator score by year
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Related Publications
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PMID
Year
Title