Seroatlas · Human Serome Atlas

VCX2

Variable charge X-linked protein 2

Also known as: VCX-2r, VCX2_HUMAN

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

Protein identityUniProt · HPA

UniProt accession: Q9H322
Gene: VCX2
Ensembl: ENSG00000177504
Chromosome: X
Canonical length: 139 aa
Protein class: Predicted intracellular proteins

OverviewNCBI Gene

This gene belongs to the VCX/Y gene family, which has multiple members on both X and Y chromosomes that are expressed exclusively in male germ cells. The VCX gene cluster is polymorphic in terms of copy number; different individuals may have a different number of VCX genes. This gene contains two copies of a 30 nt tandem repeat. Deletion of a nearby member of this family was implicated in cognitive disability. [provided by RefSeq, Feb 2015]

Canonical amino-acid sequenceUniProt

139 residues, UniProt reviewed canonical sequence.

>Q9H322|VCX2
     1  MSPKPRASGP PAKATEAGKR KSSSQPSPSD PKKKTTKVAK KGKAVRRGRR GKKGAATKMA
    61  AVTAPEAESA PAAPGPSDQP SQELPQHELP PEEPVSEGTQ HDPLSQESEV EEPLSQESEV
   121  EEPLTVWMAS FSPVSESTD

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against VCX2 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: Unknown
Secreted: No
Transmembrane segments: 0
Mean surface accessibility (rSASA): 0.7
Highest tissue expression: 27 nTPM

Expression across tissuesHPA

Tissue

testis: 27 nTPM
adipose tissue: 0 nTPM
adrenal gland: 0 nTPM
amygdala: 0 nTPM
appendix: 0 nTPM
basal ganglia: 0 nTPM

Single-cell type

early primary spermatocytes: 278 nCPM
differentiating spermatogonia: 213 nCPM
late spermatids: 39 nCPM
undifferentiated spermatogonia: 35 nCPM
late primary spermatocytes: 23 nCPM
early spermatids: 13 nCPM

Immune cell

basophil: 0 nTPM
classical monocyte: 0 nTPM
eosinophil: 0 nTPM
gdT-cell: 0 nTPM
intermediate monocyte: 0 nTPM
MAIT T-cell: 0 nTPM

Brain region

hypothalamus: 0.3 nTPM
cerebral cortex: 0.2 nTPM
choroid plexus: 0.2 nTPM
hippocampal formation: 0.2 nTPM
thalamus: 0.2 nTPM
amygdala: 0.1 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): 1.94
gnomAD pLI: 0.06
gnomAD missense Z: -4.99

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 2% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

brain development

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

Repeat

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads VCX2 as an antibody target. Whether an autoantibody or antibody against VCX2 could matter depends on whether native VCX2 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

VCX2 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 VCX2 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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