Seroatlas · Human Serome Atlas

CLGN

Calmegin

Also known as: CLGN_HUMAN

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

Protein identityUniProt · HPA

UniProt accession: O14967
Gene: CLGN
Ensembl: ENSG00000153132
Chromosome: 4
Canonical length: 610 aa
Protein class: Predicted intracellular proteins, Predicted membrane proteins
Subcellular location: Endoplasmic reticulum,Equatorial segment,Mid piece

OverviewNCBI Gene

Calmegin is a testis-specific endoplasmic reticulum chaperone protein. CLGN may play a role in spermatogeneisis and infertility. [provided by RefSeq, Jul 2008]

Canonical amino-acid sequenceUniProt

610 residues, UniProt reviewed canonical sequence.

>O14967|CLGN
     1  MHFQAFWLCL GLLFISINAE FMDDDVETED FEENSEEIDV NESELSSEIK YKTPQPIGEV
    61  YFAETFDSGR LAGWVLSKAK KDDMDEEISI YDGRWEIEEL KENQVPGDRG LVLKSRAKHH
   121  AISAVLAKPF IFADKPLIVQ YEVNFQDGID CGGAYIKLLA DTDDLILENF YDKTSYIIMF
   181  GPDKCGEDYK LHFIFRHKHP KTGVFEEKHA KPPDVDLKKF FTDRKTHLYT LVMNPDDTFE
   241  VLVDQTVVNK GSLLEDVVPP IKPPKEIEDP NDKKPEEWDE RAKIPDPSAV KPEDWDESEP
   301  AQIEDSSVVK PAGWLDDEPK FIPDPNAEKP DDWNEDTDGE WEAPQILNPA CRIGCGEWKP
   361  PMIDNPKYKG VWRPPLVDNP NYQGIWSPRK IPNPDYFEDD HPFLLTSFSA LGLELWSMTS
   421  DIYFDNFIIC SEKEVADHWA ADGWRWKIMI ANANKPGVLK QLMAAAEGHP WLWLIYLVTA
   481  GVPIALITSF CWPRKVKKKH KDTEYKKTDI CIPQTKGVLE QEEKEEKAAL EKPMDLEEEK
   541  KQNDGEMLEK EEESEPEEKS EEEIEIIEGQ EESNQSNKSG SEDEMKEADE STGSGDGPIK
   601  SVRKRRVRKD

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against CLGN 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: Other membrane
Secreted: No
Transmembrane segments: 1
Mean surface accessibility (rSASA): 0.41
Highest tissue expression: 106 nTPM

Expression across tissuesHPA

Tissue

testis: 106 nTPM
heart muscle: 56 nTPM
prostate: 21 nTPM
retina: 16 nTPM
fallopian tube: 13 nTPM
pituitary gland: 11 nTPM

Single-cell type

late primary spermatocytes: 757 nCPM
müller glia: 198 nCPM
fallopian tube ciliated cells: 165 nCPM
early primary spermatocytes: 157 nCPM
prostatic glandular cells: 141 nCPM
endometrial ciliated cells: 119 nCPM

Immune cell

basophil: 0.9 nTPM
eosinophil: 0.4 nTPM
classical monocyte: 0.2 nTPM
myeloid DC: 0.2 nTPM
memory B-cell: 0.1 nTPM
gdT-cell: 0 nTPM

Brain region

cerebellum: 9.5 nTPM
medulla oblongata: 7.1 nTPM
hypothalamus: 7 nTPM
pons: 7 nTPM
thalamus: 6.1 nTPM
choroid plexus: 5.7 nTPM

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about CLGN.

Disease | GeneticClinVar

1 pathogenic / likely-pathogenic of 95 ClinVar records.

Conditions with pathogenic or likely-pathogenic variants.

Short stature

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): 0.98
gnomAD pLI: 0
gnomAD missense Z: 0.79
DepMap mean gene effect: -0.01
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

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

InteractionsUniProt · HPA

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

CLGN 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 CLGN as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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