Seroatlas · Human Serome Atlas

CAPN6

Calpain-6

Also known as: CalpM, CAN6_HUMAN, CANPX, CAPNX

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

Protein identityUniProt · HPA

UniProt accession: Q9Y6Q1
Gene: CAPN6
Ensembl: ENSG00000077274
Chromosome: X
Canonical length: 641 aa
Protein class: Cancer-related genes, Enzymes, Predicted intracellular proteins
Subcellular location: Vesicles,Centriolar satellite

OverviewNCBI Gene

Calpains are ubiquitous, well-conserved family of calcium-dependent, cysteine proteases. The calpain proteins are heterodimers consisting of an invariant small subunit and variable large subunits. The large subunit possesses a cysteine protease domain, and both subunits possess calcium-binding domains. Calpains have been implicated in neurodegenerative processes, as their activation can be triggered by calcium influx and oxidative stress. The protein encoded by this gene is highly expressed in the placenta. Its C-terminal region lacks any homology to the calmodulin-like domain of other calpains. The protein lacks critical active site residues and thus is suggested to be proteolytically inactive. The protein may play a role in tumor formation by inhibiting apoptosis and promoting angiogenesis. [provided by RefSeq, Nov 2009]

Canonical amino-acid sequenceUniProt

641 residues, UniProt reviewed canonical sequence.

>Q9Y6Q1|CAPN6
     1  MGPPLKLFKN QKYQELKQEC IKDSRLFCDP TFLPENDSLF YNRLLPGKVV WKRPQDICDD
    61  PHLIVGNISN HQLTQGRLGH KPMVSAFSCL AVQESHWTKT IPNHKEQEWD PQKTEKYAGI
   121  FHFRFWHFGE WTEVVIDDLL PTINGDLVFS FSTSMNEFWN ALLEKAYAKL LGCYEALDGL
   181  TITDIIVDFT GTLAETVDMQ KGRYTELVEE KYKLFGELYK TFTKGGLICC SIESPNQEEQ
   241  EVETDWGLLK GHTYTMTDIR KIRLGERLVE VFSAEKVYMV RLRNPLGRQE WSGPWSEISE
   301  EWQQLTASDR KNLGLVMSDD GEFWMSLEDF CRNFHKLNVC RNVNNPIFGR KELESVLGCW
   361  TVDDDPLMNR SGGCYNNRDT FLQNPQYIFT VPEDGHKVIM SLQQKDLRTY RRMGRPDNYI
   421  IGFELFKVEM NRKFRLHHLY IQERAGTSTY IDTRTVFLSK YLKKGNYVLV PTMFQHGRTS
   481  EFLLRIFSEV PVQLRELTLD MPKMSCWNLA RGYPKVVTQI TVHSAEDLEK KYANETVNPY
   541  LVIKCGKEEV RSPVQKNTVH AIFDTQAIFY RRTTDIPIIV QVWNSRKFCD QFLGQVTLDA
   601  DPSDCRDLKS LYLRKKGGPT AKVKQGHISF KVISSDDLTE L

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against CAPN6 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: Intracellular
Secreted: No
Transmembrane segments: 0
Mean surface accessibility (rSASA): 0.24
Highest tissue expression: 201 nTPM

Expression across tissuesHPA

Tissue

epididymis: 201 nTPM
placenta: 78 nTPM
seminal vesicle: 68 nTPM
endometrium: 21 nTPM
salivary gland: 13 nTPM
cervix: 12 nTPM

Single-cell type

extravillous trophoblasts: 253 nCPM
migrating cytotrophoblasts: 191 nCPM
syncytiotrophoblasts: 166 nCPM
endometrial luminal cells: 60 nCPM
endometrial glandular cells: 29 nCPM
cytotrophoblasts: 24 nCPM

Immune cell

plasmacytoid DC: 0.3 nTPM
basophil: 0.2 nTPM
NK-cell: 0.2 nTPM
classical monocyte: 0 nTPM
eosinophil: 0 nTPM
gdT-cell: 0 nTPM

Brain region

amygdala: 0 nTPM
basal ganglia: 0 nTPM
cerebellum: 0 nTPM
cerebral cortex: 0 nTPM
choroid plexus: 0 nTPM
hippocampal formation: 0 nTPM

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about CAPN6.

Disease | GeneticClinVar

2 pathogenic / likely-pathogenic of 119 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): 0.39
gnomAD pLI: 0.82
gnomAD missense Z: 1.52
DepMap mean gene effect: 0.11
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 CAPN6 as an antibody target. Whether an autoantibody or antibody against CAPN6 could matter depends on whether native CAPN6 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

CAPN6 is annotated as predominantly intracellular. Intracellular proteins are common autoantibody markers, becoming visible to the immune system after cell injury or altered processing, but are usually markers of disease rather than direct drivers.

Annotation status

The present source text does not explicitly label CAPN6 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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