Seroatlas · Human Serome Atlas

CLEC2D

C-type lectin domain family 2 member D

Also known as: CLAX, CLC2D_HUMAN, LLT1, OCIL

Cross-references: UniProt · Ensembl · Human Protein Atlas · GeneCards · NCBI Gene

Protein identityUniProt · HPA

UniProt accession: Q9UHP7
Gene: CLEC2D
Ensembl: ENSG00000069493
Chromosome: 12
Canonical length: 191 aa
Protein class: Predicted intracellular proteins, Predicted membrane proteins
Subcellular location: Golgi apparatus
Quaternary structure: Homodimer

OverviewNCBI Gene

This gene encodes a member of the natural killer cell receptor C-type lectin family. The encoded protein inhibits osteoclast formation and contains a transmembrane domain near the N-terminus as well as the C-type lectin-like extracellular domain. Several alternatively spliced transcript variants have been identified for this gene. [provided by RefSeq, Oct 2010]

Canonical amino-acid sequenceUniProt

191 residues, UniProt reviewed canonical sequence.

>Q9UHP7|CLEC2D
     1  MHDSNNVEKD ITPSELPANP GCLHSKEHSI KATLIWRLFF LIMFLTIIVC GMVAALSAIR
    61  ANCHQEPSVC LQAACPESWI GFQRKCFYFS DDTKNWTSSQ RFCDSQDADL AQVESFQELN
   121  FLLRYKGPSD HWIGLSREQG QPWKWINGTE WTRQFPILGA GECAYLNDKG ASSARHYTER
   181  KWICSKSDIH V

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against CLEC2D 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): 0.4
Highest tissue expression: 50 nTPM

Expression across tissuesHPA

Tissue

lymph node: 50 nTPM
tonsil: 40 nTPM
thymus: 30 nTPM
spleen: 26 nTPM
small intestine: 19 nTPM
appendix: 16 nTPM

Single-cell type

t-cells: 494 nCPM
sertoli cells: 319 nCPM
nk-cells: 299 nCPM
b-cells: 254 nCPM
thymocytes: 165 nCPM
microglia: 154 nCPM

Immune cell

naive CD8 T-cell: 224 nTPM
memory CD8 T-cell: 209 nTPM
naive CD4 T-cell: 193 nTPM
gdT-cell: 189 nTPM
memory CD4 T-cell: 184 nTPM
T-reg: 176 nTPM

Brain region

white matter: 11 nTPM
medulla oblongata: 11 nTPM
thalamus: 10 nTPM
cerebral cortex: 10 nTPM
pons: 9.8 nTPM
hypothalamus: 9.7 nTPM

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): 0.67
gnomAD pLI: 0.23
gnomAD missense Z: 0.51
DepMap mean gene effect: 0.13
DepMap dependency class: none

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

cell surface receptor signaling pathway

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads CLEC2D as an antibody target. Whether an autoantibody or antibody against CLEC2D could matter depends on whether native CLEC2D is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

CLEC2D is annotated at the cell surface, where native CLEC2D is exposed to circulating antibodies and is a prime autoantibody target that could block, deplete, or overstimulate it.

Annotation status

The present source text does not explicitly label CLEC2D as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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