CD1D

Protein identityUniProt · HPA

UniProt accession

P15813

Gene

CD1D

Ensembl

ENSG00000158473

Chromosome

1

Canonical length

335 aa

Protein class

Cancer-related genes, CD markers, Predicted membrane proteins

Subcellular location

Endoplasmic reticulum

OverviewNCBI 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]

Canonical amino-acid sequenceUniProt

335 residues, UniProt reviewed canonical sequence.

>P15813|CD1D
     1  MGCLLFLLLW ALLQAWGSAE VPQRLFPLRC LQISSFANSS WTRTDGLAWL GELQTHSWSN
    61  DSDTVRSLKP WSQGTFSDQQ WETLQHIFRV YRSSFTRDVK EFAKMLRLSY PLELQVSAGC
   121  EVHPGNASNN FFHVAFQGKD ILSFQGTSWE PTQEAPLWVN LAIQVLNQDK WTRETVQWLL
   181  NGTCPQFVSG LLESGKSELK KQVKPKAWLS RGPSPGPGRL LLVCHVSGFY PKPVWVKWMR
   241  GEQEQQGTQP GDILPNADET WYLRATLDVV AGEAAGLSCR VKHSSLEGQD IVLYWGGSYT
   301  SMGLIALAVL ACLLFLLIVG FTSRFKRQTS YQGVL

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against CD1D can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability

Cell surface

Secreted

No

Transmembrane segments

1

Mean surface accessibility (rSASA)

0.34

Highest tissue expression

13 nTPM

Expression across tissuesHPA

ReferencesPubMed · IEDB

Publications for CD1D from three distinct lines of evidence, kept separate because they answer different questions: whether antibodies are directed at the protein, whether a B-cell epitope has been mapped on it, and whether a T-cell epitope has. Each is labelled with its source.

Sources: PubMed — antigen-level antibody evidence from a custom retrieval. Records matching a controlled set of autoantibody terms (the MeSH descriptors Autoantibodies and Autoantigens, with title and abstract term variants) were obtained through NCBI E-utilities, and their titles and abstracts parsed for constructions that direct an antibody at a named protein rather than for co-occurrence. Captured names were resolved against UniProt nomenclature and each antigen adjudicated individually against the source text. Bibliographic records from PubMed and MeSH, U.S. National Library of Medicine; citation metrics from NIH iCite (Hutchins et al., PLoS Biology 2016). Titles link to PubMed; abstracts are not reproduced here. The NLM does not endorse this analysis.

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance)

1

gnomAD pLI

0

gnomAD missense Z

-0.6

DepMap mean gene effect

-0.11

DepMap dependency class

selective

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 4% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

• antigen processing and presentation, endogenous lipid antigen via MHC class Ib
• antigen processing and presentation, exogenous lipid antigen via MHC class Ib
• detection of bacterium
• heterotypic cell-cell adhesion
• immune response
• innate immune response
• positive regulation of innate immune response
• positive regulation of T cell mediated cytotoxicity
• positive regulation of T cell proliferation
• T cell selection

Molecular functions

• beta-2-microglobulin binding
• cell adhesion molecule binding
• endogenous lipid antigen binding
• exogenous lipid antigen binding
• lipopeptide binding
• lipid antigen binding

Cellular components

• basolateral plasma membrane
• cell surface
• cytoplasm
• endoplasmic reticulum
• endoplasmic reticulum membrane
• endosome membrane
• external side of plasma membrane
• extracellular space
• lysosomal membrane
• lysosome
• plasma membrane

Protein domainsUniProt · Pfam · InterPro

• Immunoglobulin C1-set
• Immunoglobulin-like domain
• MHC class I-like antigen recognition-like
• MHC classes I/II-like antigen recognition protein
• Immunoglobulin-like fold
• Immunoglobulin-like domain superfamily
• MHC class I-like antigen recognition-like superfamily
• Antigen-presenting and immune regulatory MHC class I-related
• Immunoglobulin C1-set domain
• MHC-I family domain

KeywordsUniProt

• Cell membrane
• Disulfide bond
• Endoplasmic reticulum
• Endosome
• Glycoprotein
• Immunity
• Immunoglobulin domain
• Innate immunity
• Lysosome
• Membrane
• Signal
• Transmembrane
• Transmembrane helix