Seroatlas · Human Serome Atlas

CLEC4C

C-type lectin domain family 4 member C

Also known as: BDCA2, CD303, CLC4C_HUMAN, CLECSF11, CLECSF7, DLEC, HECL

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

Protein identityUniProt · HPA

UniProt accession: Q8WTT0
Gene: CLEC4C
Ensembl: ENSG00000198178
Chromosome: 12
Canonical length: 213 aa
Protein class: CD markers, Predicted intracellular proteins, Predicted membrane proteins
Quaternary structure: Homodimer

OverviewNCBI Gene

This gene encodes a member of the C-type lectin/C-type lectin-like domain (CTL/CTLD) superfamily. Members of this family share a common protein fold and have diverse functions, such as cell adhesion, cell-cell signalling, glycoprotein turnover, and roles in inflammation and immune response. The encoded type 2 transmembrane protein may play a role in dendritic cell function. Two transcript variants encoding distinct isoforms have been identified for this gene. [provided by RefSeq, Jul 2008]

Canonical amino-acid sequenceUniProt

213 residues, UniProt reviewed canonical sequence.

>Q8WTT0|CLEC4C
     1  MVPEEEPQDR EKGLWWFQLK VWSMAVVSIL LLSVCFTVSS VVPHNFMYSK TVKRLSKLRE
    61  YQQYHPSLTC VMEGKDIEDW SCCPTPWTSF QSSCYFISTG MQSWTKSQKN CSVMGADLVV
   121  INTREEQDFI IQNLKRNSSY FLGLSDPGGR RHWQWVDQTP YNENVTFWHS GEPNNLDERC
   181  AIINFRSSEE WGWNDIHCHV PQKSICKMKK IYI

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against CLEC4C 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: 5.1 nTPM

Expression across tissuesHPA

Tissue

lymph node: 5.1 nTPM
tonsil: 4.9 nTPM
spleen: 3.6 nTPM
thymus: 1.9 nTPM
bone marrow: 1.4 nTPM
appendix: 1.3 nTPM

Single-cell type

pdcs: 423 nCPM
oocytes: 101 nCPM
undifferentiated spermatogonia: 27 nCPM
differentiating spermatogonia: 20 nCPM
cdc: 7.4 nCPM
thymocytes: 5.1 nCPM

Immune cell

plasmacytoid DC: 469 nTPM
eosinophil: 30 nTPM
neutrophil: 15 nTPM
basophil: 5.3 nTPM
myeloid DC: 4.1 nTPM
NK-cell: 3 nTPM

Brain region

choroid plexus: 2.5 nTPM
cerebellum: 1.6 nTPM
cerebral cortex: 1.3 nTPM
white matter: 1.1 nTPM
basal ganglia: 1 nTPM
hippocampal formation: 1 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): 1.32
gnomAD pLI: 0
gnomAD missense Z: 0.7
DepMap mean gene effect: 0.05
DepMap dependency class: none

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 3% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads CLEC4C as an antibody target. Whether an autoantibody or antibody against CLEC4C could matter depends on whether native CLEC4C is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

CLEC4C is annotated at the cell surface, where native CLEC4C 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 CLEC4C as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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