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 CD... See more...

Aliases for CD1D Gene

Aliases for CD1D Gene

  • CD1d Molecule 2 3 5
  • Antigen-Presenting Glycoprotein CD1d 3 4
  • CD1D Antigen, D Polypeptide 2 3
  • CD1d Antigen 2 4
  • R3G1 3 4
  • HMC Class I Antigen-Like Glycoprotein CD1D 3
  • Differentiation Antigen CD1-Alpha-3 3
  • T-Cell Surface Glycoprotein CD1d 3
  • Thymocyte Antigen CD1D 3
  • CD1A 3
  • R3 3

External Ids for CD1D Gene

Previous GeneCards Identifiers for CD1D Gene

  • GC01P155941
  • GC01P153882
  • GC01P154927
  • GC01P155366
  • GC01P154962
  • GC01P156416
  • GC01P158149
  • GC01P129508

Summaries for CD1D Gene

Entrez Gene Summary for CD1D Gene

  • 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]

GeneCards Summary for CD1D Gene

CD1D (CD1d Molecule) is a Protein Coding gene. Diseases associated with CD1D include Mycobacterium Malmoense and Glottis Neoplasm. Among its related pathways are Hematopoietic cell lineage and Class I MHC mediated antigen processing and presentation. Gene Ontology (GO) annotations related to this gene include cell adhesion molecule binding. An important paralog of this gene is CD1E.

UniProtKB/Swiss-Prot Summary for CD1D Gene

  • Antigen-presenting protein that binds self and non-self glycolipids and presents them to T-cell receptors on natural killer T-cells.

Gene Wiki entry for CD1D Gene

Additional gene information for CD1D Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for CD1D Gene

Genomics for CD1D Gene

GeneHancer (GH) Regulatory Elements for CD1D Gene

Promoters and enhancers for CD1D Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH01J158176 Promoter/Enhancer 2 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas 505.1 -0.3 -283 1.7 SP2 ZBTB17 JUND ZNF335 IKZF3 PKNOX1 ZNF189 ZFP91 SCRT1 ZBTB40 CD1D ELL2P1 ENSG00000176320 lnc-CD1D-1
GH01J158179 Promoter/Enhancer 1.7 EPDnew Ensembl ENCODE dbSUPER 500.7 +2.9 2862 4.2 EP300 ZIC2 ZBTB10 ZNF423 ZBTB26 TRIM28 ZNF341 POLR2A EZH2 HDAC2 CD1D ENSG00000176320 ELL2P1 lnc-CD1B-6
GH01J158148 Promoter/Enhancer 1.5 Ensembl ENCODE CraniofacialAtlas 11.4 -28.6 -28558 2.6 ZNF217 NRF1 MYC USF1 SIX5 ZBTB11 HINFP HDAC2 CTBP1 NR2F2 LINC01704 lnc-CD1D-2 piR-31926-003 CD1D ELL2P1 LOC105371460
GH01J158144 Enhancer 0.9 FANTOM5 ENCODE 11.1 -31.6 -31573 3.4 FOSL1 FOS NCOR1 CEBPB PBX2 JUN NFE2 IRF1 JUND PKNOX1 piR-31926-003 CD1D ELL2P1 KIRREL1 OR10R2 OR10X1 LINC01704 LOC105371460
GH01J158188 Enhancer 0.4 dbSUPER 18 +11.2 11206 1.4 ATF2 JUND ATF7 lnc-CD1B-6 CD1D ELL2P1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CD1D on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for CD1D

Top Transcription factor binding sites by QIAGEN in the CD1D gene promoter:
  • AML1a
  • AREB6
  • E47
  • FOXD3
  • HOXA5
  • POU2F1
  • POU2F1a
  • PPAR-gamma1
  • STAT3

Genomic Locations for CD1D Gene

Genomic Locations for CD1D Gene
chr1:158,178,038-158,186,427
(GRCh38/hg38)
Size:
8,390 bases
Orientation:
Plus strand
chr1:158,149,737-158,156,217
(GRCh37/hg19)
Size:
6,481 bases
Orientation:
Plus strand

Genomic View for CD1D Gene

Genes around CD1D on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CD1D Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CD1D Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CD1D Gene

Proteins for CD1D Gene

  • Protein details for CD1D Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P15813-CD1D_HUMAN
    Recommended name:
    Antigen-presenting glycoprotein CD1d
    Protein Accession:
    P15813
    Secondary Accessions:
    • D3DVD5
    • Q5W0J3
    • Q9UMM3
    • Q9Y5M4

    Protein attributes for CD1D Gene

    Size:
    335 amino acids
    Molecular mass:
    37717 Da
    Quaternary structure:
    • Heterodimer with B2M (beta-2-microglobulin). Interacts with MHC II.
    Miscellaneous:
    • During protein synthesis and maturation, CD1 family members bind endogenous lipids that are replaced by lipid or glycolipid antigens when the proteins are internalized and pass through endosomes, before trafficking back to the cell surface.

    Three dimensional structures from OCA and Proteopedia for CD1D Gene

neXtProt entry for CD1D Gene

Post-translational modifications for CD1D Gene

  • Glycosylation at Asn38, Asn60, Asn126, and Asn181
  • Modification sites at PhosphoSitePlus

Other Protein References for CD1D Gene

Antibody Products

  • Abcam antibodies for CD1D
  • Boster Bio Antibodies for CD1D

Protein Products

  • Abcam proteins for CD1D

No data available for DME Specific Peptides for CD1D Gene

Domains & Families for CD1D Gene

Gene Families for CD1D Gene

HGNC:
Human Protein Atlas (HPA):
  • Cancer-related genes
  • CD markers
  • Predicted membrane proteins

Protein Domains for CD1D Gene

Suggested Antigen Peptide Sequences for CD1D Gene

GenScript: Design optimal peptide antigens:
  • R3G1 (CD1D_HUMAN)
genes like me logo Genes that share domains with CD1D: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for CD1D Gene

Function for CD1D Gene

Molecular function for CD1D Gene

UniProtKB/Swiss-Prot Function:
Antigen-presenting protein that binds self and non-self glycolipids and presents them to T-cell receptors on natural killer T-cells.
GENATLAS Biochemistry:
cell differentiation antigen CD1D,49kDa,cell surface molecule,B2M associated,identified by monoclonal antibody NOR3.2 expressed on a cortical thymocyte cell line (see CD1@)

Gene Ontology (GO) - Molecular Function for CD1D Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 30126976
GO:0030881 beta-2-microglobulin binding TAS 14500461
GO:0030882 lipid antigen binding IDA 19124746
GO:0030883 endogenous lipid antigen binding IBA 21873635
GO:0030884 exogenous lipid antigen binding IDA 10523605
genes like me logo Genes that share ontologies with CD1D: view
genes like me logo Genes that share phenotypes with CD1D: view

Animal Models for CD1D Gene

MGI Knock Outs for CD1D:

Clone Products

  • Addgene plasmids for CD1D

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CD1D Gene

Localization for CD1D Gene

Subcellular locations from UniProtKB/Swiss-Prot for CD1D Gene

Cell membrane; Single-pass type I membrane protein. Basolateral cell membrane; Single-pass type I membrane protein. Endosome membrane; Single-pass type I membrane protein. Lysosome membrane; Single-pass type I membrane protein. Endoplasmic reticulum membrane; Single-pass type I membrane protein. Note=Subject to intracellular trafficking between the cell membrane, endosomes and lysosomes. {ECO:0000269 PubMed:9973405}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CD1D gene
Compartment Confidence
plasma membrane 5
extracellular 4
endoplasmic reticulum 4
endosome 4
lysosome 4
nucleus 3
cytoskeleton 2
mitochondrion 2
cytosol 2
golgi apparatus 2
peroxisome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Endoplasmic reticulum (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for CD1D Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005615 extracellular space IBA 21873635
GO:0005737 cytoplasm IDA 19124746
GO:0005764 lysosome IEA --
GO:0005765 lysosomal membrane IEA --
GO:0005768 endosome IEA --
genes like me logo Genes that share ontologies with CD1D: view

Pathways & Interactions for CD1D Gene

genes like me logo Genes that share pathways with CD1D: view

Gene Ontology (GO) - Biological Process for CD1D Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001916 positive regulation of T cell mediated cytotoxicity