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Tdark
GPCPD1
Glycerophosphocholine phosphodiesterase GPCPD1

Protein Summary
Description
May be involved in the negative regulation of skeletal muscle differentiation, independently of its glycerophosphocholine phosphodiesterase activity.
Uniprot Accession IDs
Gene Name
Ensembl ID
  • ENST00000379019
  • ENSP00000368305
  • ENSG00000125772

Symbol
  • GDE5
  • KIAA1434
  • EDI3
  • GDE5
  • GDPD6
  • PREI4
Illumination Graph
Knowledge Table
Most Knowledge About
Knowledge Value (0 to 1 scale)
transcription factor perturbation
0.98
virus perturbation
0.98
cell type or tissue
0.74
microRNA
0.73
protein domain
0.73


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: 30.32   (req: < 5)
Gene RIFs: 3   (req: <= 3)
Antibodies: 23   (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: 30.32   (req: >= 5)
Gene RIFs: 3   (req: > 3)
Antibodies: 23   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 4
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
low density lipoprotein cholesterol measurement
3
1
3
91.1
apolipoprotein B measurement
1
1
1
41.1
BMI-adjusted waist-hip ratio
2
2
2
34.7
heel bone mineral density
2
2
2
18.3
waist-hip ratio
1
1
1
6.2
GWAS Trait
EFO ID
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
low density lipoprotein cholesterol measurement
3
91.1
apolipoprotein B measurement
1
41.1
BMI-adjusted waist-hip ratio
2
34.7
heel bone mineral density
2
18.3
waist-hip ratio
1
6.2
Orthologs (15)
1 – 5 of 15
Species
Name
Source ID
Gene ID
OMA
EggNOG
Inparanoid
Chimp
glycerophosphocholine phosphodiesterase 1
VGNC:9865
458085
Macaque
glycerophosphocholine phosphodiesterase 1
719117
Mouse
MGI:104898
74182
Rat
RGD:735140
362219
Dog
glycerophosphocholine phosphodiesterase 1
VGNC:41375
485778
Species
Name
OMA
EggNOG
Inparanoid
Chimp
glycerophosphocholine phosphodiesterase 1
Macaque
glycerophosphocholine phosphodiesterase 1
Mouse
Rat
Dog
glycerophosphocholine phosphodiesterase 1
Protein Structure (1 Structure, 1 AlphaFold Model)
RepresentationColor Scheme

Click on a row in the table to change the structure displayed.
More information can be found at RCSB PDB

AF-Q9NPB8-F1-model_v1

AlphaFold Structures Developed by DeepMind and EMBL-EBI

1 – 1 of 1
PDB Structure Id
Ligand
Method
Resolution (Å)
Residues
Fraction of Total Protein
Pub Year
Title
PDB Structure Id
Fraction of Total Protein
Resolution
Pub Year
Pathways (8)
Glycerophospholipid biosynthesis (R-HSA-1483206)

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

Items per page:
1 – 5 of 6
Data Source
Name
Explore in Pharos
Explore in Source
Reactome
Glycerophospholipid biosynthesis
Reactome
Hydrolysis of LPC
Reactome
Hydrolysis of LPE
Reactome
Metabolism
Reactome
Metabolism of lipids
Name
Explore in Pharos
Explore in Source
Glycerophospholipid biosynthesis
Hydrolysis of LPC
Hydrolysis of LPE
Metabolism
Metabolism of lipids
Gene Ontology Terms (5)
Items per page:
10
1 – 2 of 2
GO Term
Evidence
Assigned by
Inferred from Biological aspect of Ancestor (IBA)
GO_Central
Inferred from Electronic Annotation (IEA)
InterPro
Protein-Protein Interactions (52)
1 – 10 of 52
SLC35D3
Tbio
Family: Transporter
Novelty: 0.23424924
p_int: 1
Score: 0.692
Data Source: BioPlex,STRINGDB
PCBD1
Tbio
Family: Enzyme
Novelty: 0.01564376
p_int: 0.900562976
p_ni: 0.000129362
p_wrong: 0.099307662
Data Source: BioPlex
CHKA
Tchem
Family: Kinase
Novelty: 0.00237839
Score: 0.96
Data Source: STRINGDB
CHKB
Tbio
Family: Kinase
Novelty: 0.00862294
Score: 0.944
Data Source: STRINGDB
PNPLA7
Tdark
Family: Enzyme
Novelty: 0.11025485
Score: 0.941
Data Source: STRINGDB
PNPLA6
Tbio
Family: Enzyme
Novelty: 0.00295195
Score: 0.941
Data Source: STRINGDB
LYPLA2
Tchem
Family: Enzyme
Novelty: 0.05436006
Score: 0.921
Data Source: STRINGDB
LYPLA1
Tchem
Family: Enzyme
Novelty: 0.01217068
Score: 0.918
Data Source: STRINGDB
ETNK1
Tbio
Family: Kinase
Novelty: 0.04817798
Score: 0.914
Data Source: STRINGDB
ETNK2
Tbio
Family: Kinase
Novelty: 0.13225627
Score: 0.912
Data Source: STRINGDB
Publication Statistics
PubMed Score  30.32

PubMed score by year
PubTator Score  19.61

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