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Tbio
CD1D
Antigen-presenting glycoprotein CD1d

Protein Summary
Description
Antigen-presenting protein that binds self and non-self glycolipids and presents them to T-cell receptors on natural killer T-cells. This gene encodes a divergent member of the CD1 family of transmembrane glycoproteins, which are structurally related to the major histocompatibility complex (MHC) proteins and form heterodimers with beta-2-microglobulin. The CD1 proteins mediate the presentation of primarily lipid and glycolipid antigens of self or microbial origin to T cells. The human genome contains five CD1 family genes organized in a cluster on chromosome 1. The CD1 family members are thought to differ in their cellular localization and specificity for particular lipid ligands. The protein encoded by this gene localizes to late endosomes and lysosomes via a tyrosine-based motif in the cytoplasmic tail. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jan 2016]
Uniprot Accession IDs
Gene Name
Ensembl ID
  • ENST00000368171
  • ENSP00000357153
  • ENSG00000158473

Symbol
  • R3
  • CD1A
  • R3G1
Illumination Graph
Knowledge Table
Most Knowledge About
Knowledge Value (0 to 1 scale)
gene perturbation
0.91
cellular component
0.85
protein domain
0.73
PubMedID
0.72
phenotype
0.67


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.
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: 2110.8   (req: < 5)
Gene RIFs: 133   (req: <= 3)
Antibodies: 477   (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: 2110.8   (req: >= 5)
Gene RIFs: 133   (req: > 3)
Antibodies: 477   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 18
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 (4)
GWAS Trait
EFO ID
Study Count
SNP Count
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
age at onset
1
1
0
6.2
38.2
Myopia
1
1
0
6.2
38.2
refractive error measurement
1
1
0
6.2
38.2
neurofilament light chain measurement
1
1
0
1
2.6
GWAS Trait
EFO ID
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
age at onset
0
6.2
38.2
Myopia
0
6.2
38.2
refractive error measurement
0
6.2
38.2
neurofilament light chain measurement
0
1
2.6
Orthologs (10)
1 – 5 of 10
Species
Name
Source ID
Gene ID
OMA
EggNOG
Inparanoid
Chimp
CD1d molecule
VGNC:5008
469524
Macaque
CD1d molecule
613268
Mouse
MGI:107674
12479
Mouse
MGI:107675
12480
Rat
RGD:2296
25109
Species
Name
OMA
EggNOG
Inparanoid
Chimp
CD1d molecule
Macaque
CD1d molecule
Mouse
Mouse
Rat
Protein Structure (15 Structures, 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-P15813-F1-model_v1

AlphaFold Structures Developed by DeepMind and EMBL-EBI

1 – 5 of 15
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 (6)
Adaptive Immune System (R-HSA-1280218)

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

Items per page:
1 – 3 of 3
Data Source
Name
Explore in Pharos
Explore in Source
Reactome
Adaptive Immune System
Reactome
Immune System
Reactome
Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell
Name
Explore in Pharos
Explore in Source
Adaptive Immune System
Immune System
Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell
Gene Ontology Terms (27)
Items per page:
10
1 – 7 of 7
GO Term
Evidence
Assigned by
Inferred from Direct Assay (IDA)
UniProtKB
Inferred from Direct Assay (IDA)
BHF-UCL
Inferred from Physical Interaction (IPI)
BHF-UCL
Inferred from Physical Interaction (IPI)
UniProtKB
Inferred from Biological aspect of Ancestor (IBA)
GO_Central
Inferred from Biological aspect of Ancestor (IBA)
GO_Central
Traceable Author Statement (TAS)
UniProtKB
Protein-Protein Interactions (192)
1 – 10 of 192
MINDY1
Tbio
Novelty:  0.31540765
p_int:  0.97355054
p_ni:  0.026131208
p_wrong:  0.000318252
Data Source:  BioPlex
B2M
Tbio
Novelty:  0.00011248
Score:  0.996
Data Source:  Reactome,STRINGDB
CD3E
Tclin
Novelty:  0.0053855
Score:  0.946
Data Source:  Reactome,STRINGDB
CD3D
Tclin
Novelty:  0.00510314
Score:  0.924
Data Source:  Reactome,STRINGDB
CD3G
Tclin
Novelty:  0.00466154
Score:  0.904
Data Source:  Reactome,STRINGDB
CD83
Tbio
Novelty:  0.00138653
Score:  0.862
Data Source:  STRINGDB
CSF2
Tbio
Novelty:  0.00010437
Score:  0.842
Data Source:  STRINGDB
CD86
Tclin
Novelty:  0.00029965
Score:  0.839
Data Source:  STRINGDB
CD68
Tbio
Novelty:  0.00017859
Score:  0.828
Data Source:  STRINGDB
PTPRC
Tchem
Family:  Enzyme
Novelty:  0.00012027
Score:  0.818
Data Source:  STRINGDB
Publication Statistics
PubMed Score  2110.80

PubMed score by year
PubTator Score  746.96

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