Gene

CD1D

Species
Homo sapiens
Symbol
CD1D
Name
CD1d molecule
Synonyms
  • antigen-presenting glycoprotein CD1d
  • CD1A
Biotype
protein coding gene
Automated Description
Enables cell adhesion molecule binding activity and exogenous lipid antigen binding activity. Involved in antigen processing and presentation, endogenous lipid antigen via MHC class Ib and positive regulation of T cell proliferation. Located in cell surface; endoplasmic reticulum; and lysosome. Implicated in pulmonary tuberculosis. Biomarker of dengue hemorrhagic fever; stomach cancer; and urinary schistosomiasis.
RGD Description
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]
Cross References
Additional Information
Literature

Orthology

Gene tree
PANTHER:PTHR16675
Stringency:
Additional filters to further constrain the results:
Species Gene symbol Count Best Best reverse
Method
Ensembl ComparaHGNCHieranoidInParanoidOMAOrthoFinderOrthoInspectorPANTHERPhylomeDBSonicParanoidXenbaseZFIN
Mus musculusCd1d29 of 10YesYes  
Mus musculusCd1d19 of 10YesYes  
Rattus norvegicusCd1d19 of 10YesYes  
Danio reriomhc1lfa3 of 10YesYes  
Danio reriomhc1lea3 of 10YesYes  
Danio reriomhc1lda3 of 10YesYes  
Danio reriomhc1lca3 of 10YesYes  
Danio reriomhc1laa3 of 10YesYes  
Danio reriomhc1lla3 of 10YesYes  
Danio reriomhc1lja3 of 10YesYes  
Danio reriomhc1lga3 of 10YesYes  
Danio reriosi:dkey-52p2.53 of 10YesYes  
Danio reriomhc1lba3 of 10YesNo  
Links to orthology data in JBrowse by filter level: Stringent,  Moderate,  No filter,  Best and Best Reverse

Paralogy

Gene symbolRank Alignment Length (aa) Similarity %Identity %Method Count
Method
Ensembl ComparaHGNCInParanoidOMAOrthoFinderOrthoInspectorPANTHERPhylomeDBSonicParanoidSGD
CD1E134268545 of 8  
CD1A233069525 of 8  
CD1B333166535 of 8  
CD1C429965515 of 8  
HFE535543263 of 8  
HLA-F641934223 of 8  
HLA-B734740263 of 8  
HLA-G834738253 of 8  
HLA-A935038243 of 8  
MICA1032942243 of 8  
FCGRT1133642272 of 8  
AZGP11229739283 of 8  
HLA-C1330240243 of 8  
HLA-E1429040243 of 8  
RAET1G1534933213 of 8  
MICB1629141223 of 8  
MR11729040233 of 8  
RAET1E1830633213 of 8  
ULBP21924735213 of 8  
RAET1L2024634203 of 8  
ULBP32123933213 of 8  
ULBP12226127203 of 8  
HLA-H232 of 8  

Function - GO Annotations

Pathways

No data available

Phenotypes

Primary Sources
None
Other Sources
Phenotype Term
Annotation details
References
Pulmonary tuberculosis
Showing 1 - 1 of 1 rows
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Disease Associations

Cases where the expected disease association was NOT found
Must provide at least one subject
Cell color indicative of annotation volume

Alleles and Variants

Genome location
Assembly version
GRCh38
Viewer Help
158.179M158.180M158.181M158.182M158.183M158.184M158.185M158.186M
Allele/Variant Symbol
Allele Synonyms
Category
Variant
Variant type
Molecular consequence
Has Disease Annotations
Has Phenotype Annotations
NC_000001.11:g.158181715T>Gvariant
SNP
  • missense variant
NC_000001.11:g.158182055G>Tvariant
SNP
  • missense variant
NC_000001.11:g.158183995C>Tvariant
SNP
  • missense variant
NC_000001.11:g.158182073C>Tvariant
SNP
  • missense variant
NC_000001.11:g.158184136C>Gvariant
SNP
  • missense variant
NC_000001.11:g.158184014C>Tvariant
SNP
  • missense variant
NC_000001.11:g.158181138C>Tvariant
SNP
  • missense variant
NC_000001.11:g.158181133C>Avariant
SNP
  • missense variant
NC_000001.11:g.158181583A>Tvariant
SNP
  • missense variant
NC_000001.11:g.158182962C>Tvariant
SNP
  • missense variant
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Transgenic Alleles

Species
(carrying the transgene)
Allele symbol
Transgenic construct
Expressed components
Knock-down targets
Regulatory regions
Has Disease Annotations
Has Phenotype Annotations
Mus musculusCd1d1em3(CD1D)Smoc
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Models

No data available

Sequence Feature Viewer

Genome location
Assembly version
GRCh38
Viewer Help
158.179M158.180M158.181M158.182M158.183M158.184M158.185M158.186M

Sequence Details

Transcript: Mode:

Expression

Primary Sources
None
Other Sources
Must provide at least one subject
Cell color indicative of annotation volume; red slash indicates species lacks structure or developmental stage.

Molecular Interactions

7 interactor genes based on 9 annotations
CD1D molecule type
Interactor gene
Interactor species
Interactor molecule type
Detection methods
Source
Reference
protein
B2MHomo sapiens
protein
  • affinity chromatography technology
PMID:10221650
protein
B2MHomo sapiens
protein
  • x-ray crystallography
PMID:17581592
protein
CALRHomo sapiens
protein
  • affinity chromatography technology
PMID:12239218
protein
CANXHomo sapiens
protein
  • affinity chromatography technology
PMID:12239218
protein
DLG1Homo sapiens
protein
  • p8 filamentous phage display
PMID:30126976
protein
DLG1Homo sapiens
protein
  • p8 filamentous phage display
PMID:30126976
protein
MINDY1Homo sapiens
protein
  • affinity chromatography technology
PMID:33961781
protein
P4HTMHomo sapiens
protein
  • affinity chromatography technology
PMID:11257307
protein
PTPRCHomo sapiens
protein
  • affinity chromatography technology
PMID:10473580
Showing 1 - 9 of 9 rows
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Genetic Interactions

No data available