Seroatlas · Human Serome Atlas

VSIG4

V-set and immunoglobulin domain-containing protein 4

Also known as: CRIg, VSIG4_HUMAN, Z39IG

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

Protein identityUniProt · HPA

UniProt accession: Q9Y279
Gene: VSIG4
Ensembl: ENSG00000155659
Chromosome: X
Canonical length: 399 aa
Protein class: Plasma proteins, Predicted membrane proteins
Subcellular location: Nucleoli,Plasma membrane,Cytosol

OverviewNCBI Gene

This gene encodes a v-set and immunoglobulin-domain containing protein that is structurally related to the B7 family of immune regulatory proteins. The encoded protein may be a negative regulator of T-cell responses. This protein is also a receptor for the complement component 3 fragments C3b and iC3b. Alternate splicing results in multiple transcript variants. [provided by RefSeq, May 2010]

Canonical amino-acid sequenceUniProt

399 residues, UniProt reviewed canonical sequence.

>Q9Y279|VSIG4
     1  MGILLGLLLL GHLTVDTYGR PILEVPESVT GPWKGDVNLP CTYDPLQGYT QVLVKWLVQR
    61  GSDPVTIFLR DSSGDHIQQA KYQGRLHVSH KVPGDVSLQL STLEMDDRSH YTCEVTWQTP
   121  DGNQVVRDKI TELRVQKLSV SKPTVTTGSG YGFTVPQGMR ISLQCQARGS PPISYIWYKQ
   181  QTNNQEPIKV ATLSTLLFKP AVIADSGSYF CTAKGQVGSE QHSDIVKFVV KDSSKLLKTK
   241  TEAPTTMTYP LKATSTVKQS WDWTTDMDGY LGETSAGPGK SLPVFAIILI ISLCCMVVFT
   301  MAYIMLCRKT SQQEHVYEAA RAHAREANDS GETMRVAIFA SGCSSDEPTS QNLGNNYSDE
   361  PCIGQEYQII AQINGNYARL LDTVPLDYEF LATEGKSVC

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against VSIG4 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: 1
Mean surface accessibility (rSASA): 0.46
Highest tissue expression: 156 nTPM

Expression across tissuesHPA

Tissue

lung: 156 nTPM
adipose tissue: 131 nTPM
placenta: 131 nTPM
smooth muscle: 101 nTPM
blood vessel: 76 nTPM
spleen: 67 nTPM

Single-cell type

hofbauer cells: 2,053 nCPM
kupffer cells: 708 nCPM
macrophages: 453 nCPM
monocytes: 315 nCPM
cdc: 173 nCPM
microglia: 37 nCPM

Immune cell

classical monocyte: 19 nTPM
myeloid DC: 18 nTPM
intermediate monocyte: 11 nTPM
total PBMC: 5.6 nTPM
neutrophil: 0.6 nTPM
non-classical monocyte: 0.4 nTPM

Brain region

thalamus: 50 nTPM
white matter: 27 nTPM
pons: 25 nTPM
medulla oblongata: 23 nTPM
choroid plexus: 16 nTPM
cerebral cortex: 14 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): 1.68
gnomAD pLI: 0
gnomAD missense Z: -1.43
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

complement component C3b binding

Cellular components

Protein domainsUniProt · Pfam · InterPro

Immunoglobulin subtype 2
Immunoglobulin domain subtype
Immunoglobulin-like domain
Immunoglobulin V-set domain
Immunoglobulin-like fold
Immunoglobulin-like domain superfamily
Immunoglobulin V-set domain
Immunoglobulin domain
V-set and immunoglobulin domain-containing protein 4
VSIG4, immunoglobulin variable (IgV)-like domain

KeywordsUniProt

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads VSIG4 as an antibody target. Whether an autoantibody or antibody against VSIG4 could matter depends on whether native VSIG4 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

VSIG4 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 VSIG4 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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