Seroatlas · Human Serome Atlas

CLDN16

Claudin-16

Also known as: CLD16_HUMAN, HOMG3, PCLN1

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

Protein identityUniProt · HPA

UniProt accession
Q9Y5I7
Gene
CLDN16
Ensembl
ENSG00000113946
Chromosome
3
Canonical length
235 aa
Protein class
Disease related genes, Human disease related genes, Potential drug targets, Predicted membrane proteins, Transporters

OverviewNCBI Gene

Tight junctions represent one mode of cell-to-cell adhesion in epithelial or endothelial cell sheets, forming continuous seals around cells and serving as a physical barrier to prevent solutes and water from passing freely through the paracellular space. These junctions are comprised of sets of continuous networking strands in the outwardly facing cytoplasmic leaflet, with complementary grooves in the inwardly facing extracytoplasmic leaflet. The protein encoded by this gene, a member of the claudin family, is an integral membrane protein and a component of tight junction strands. It is found primarily in the kidneys, specifically in the thick ascending limb of Henle, where it acts as either an intercellular pore or ion concentration sensor to regulate the paracellular resorption of magnesium ions. Defects in this gene are a cause of primary hypomagnesemia, which is characterized by massive renal magnesium wasting with hypomagnesemia and hypercalciuria, resulting in nephrocalcinosis and renal failure. This gene and the CLDN1 gene are clustered on chromosome 3q28. [provided by RefSeq, Jun 2010]

Canonical amino-acid sequenceUniProt

235 residues, UniProt reviewed canonical sequence.

>Q9Y5I7|CLDN16
     1  MRDLLQYIAC FFAFFSAGFL IVATWTDCWM VNADDSLEVS TKCRGLWWEC VTNAFDGIRT
    61  CDEYDSILAE HPLKLVVTRA LMITADILAG FGFLTLLLGL DCVKFLPDEP YIKVRICFVA
   121  GATLLIAGTP GIIGSVWYAV DVYVERSTLV LHNIFLGIQY KFGWSCWLGM AGSLGCFLAG
   181  AVLTCCLYLF KDVGPERNYP YSLRKAYSAA GVSMAKSYSA PRTETAKMYA VDTRV

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against CLDN16 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
4
Mean surface accessibility (rSASA)
0.37
Highest tissue expression
59 nTPM

Expression across tissuesHPA

Tissue

  • kidney: 59 nTPM
  • thyroid gland: 9 nTPM
  • skin: 3 nTPM
  • fallopian tube: 2.7 nTPM
  • liver: 2.1 nTPM
  • lymph node: 1.4 nTPM

Single-cell type

  • ocular epithelial cells: 194 nCPM
  • epididymal basal cells: 122 nCPM
  • respiratory ciliated cells: 99 nCPM
  • loop of henle epithelial cells: 90 nCPM
  • choroid plexus epithelial cells: 83 nCPM
  • epididymal efferent duct ciliated cells: 67 nCPM

Immune cell

  • basophil: 0.1 nTPM
  • neutrophil: 0.1 nTPM
  • classical monocyte: 0 nTPM
  • eosinophil: 0 nTPM
  • gdT-cell: 0 nTPM
  • intermediate monocyte: 0 nTPM

Brain region

  • choroid plexus: 4 nTPM
  • white matter: 1.9 nTPM
  • cerebral cortex: 1.8 nTPM
  • basal ganglia: 1.5 nTPM
  • amygdala: 1.2 nTPM
  • hypothalamus: 1.2 nTPM

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about CLDN16.

Disease | AllUniProt

Conditions CLDN16 is implicated in, by any mechanism.

Disease | GeneticClinVar

48 pathogenic / likely-pathogenic of 276 ClinVar records.

Conditions with pathogenic or likely-pathogenic variants.

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)
0.76
gnomAD pLI
0.03
gnomAD missense Z
-0.08
DepMap mean gene effect
0.05
DepMap dependency class
selective

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 6% 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

InteractionsUniProt · HPA

Protein binding partners of CLDN16 in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads CLDN16 as an antibody target. Whether an autoantibody or antibody against CLDN16 could matter depends on whether native CLDN16 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

CLDN16 is annotated at the cell surface, where native CLDN16 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 CLDN16 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/CLDN16. Study-independent annotations aggregated from UniProt, Human Protein Atlas, PubMed, IEDB, Pfam, InterPro, Gene Ontology, AlphaFold, gnomAD, DepMap, ClinVar, TCGA. Catalog release seroatlas-reviewed-human-uniprot-20260313.

Seroatlas is the reference for exploring autoantibody and antibody serology at the human-protein level: the autoreactome and human serome, multiplex serology (HuProt, HuScan, VirScan, PhIP-Seq).

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