Seroatlas · Human Serome Atlas

SYNGR4

Synaptogyrin-4

Also known as: SNG4_HUMAN

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

Protein identityUniProt · HPA

UniProt accession: O95473
Gene: SYNGR4
Ensembl: ENSG00000105467
Chromosome: 19
Canonical length: 234 aa
Protein class: Predicted intracellular proteins, Predicted membrane proteins
Subcellular location: Golgi apparatus

OverviewNCBI Gene

This gene encodes an integral membrane protein. The gene belongs to the synaptogyrin gene family. Like other members of the family the protein contains four transmembrane regions. The exact function of this protein is unclear. [provided by RefSeq, Jul 2008]

Canonical amino-acid sequenceUniProt

234 residues, UniProt reviewed canonical sequence.

>O95473|SYNGR4
     1  MHIPKSLQEL ANSEAVQFLR RPKTITRVFE GVFSLIVFSS LLTDGYQNKM ESPQLHCILN
    61  SNSVACSFAV GAGFLAFLSC LAFLVLDTQE TRIAGTRFKT AFQLLDFILA VLWAVVWFMG
   121  FCFLANQWQH SPPKEFLLGS SSAQAAIAFT FFSILVWIFQ AYLAFQDLRN DAPVPYKRFL
   181  DEGGMVLTTL PLPSANSPVN MPTTGPNSLS YASSALSPCL TAPKSPRLAM MPDN

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against SYNGR4 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: 4
Mean surface accessibility (rSASA): 0.42
Highest tissue expression: 50 nTPM

Expression across tissuesHPA

Tissue

testis: 50 nTPM
cerebellum: 5.8 nTPM
parathyroid gland: 3.7 nTPM
cerebral cortex: 1.7 nTPM
pancreas: 0.9 nTPM
basal ganglia: 0.7 nTPM

Single-cell type

early primary spermatocytes: 198 nCPM
late primary spermatocytes: 126 nCPM
pancreatic islet cells: 49 nCPM
early spermatids: 35 nCPM
late spermatids: 27 nCPM
oocytes: 9.2 nCPM

Immune cell

memory B-cell: 0.1 nTPM
memory CD4 T-cell: 0.1 nTPM
basophil: 0 nTPM
classical monocyte: 0 nTPM
eosinophil: 0 nTPM
gdT-cell: 0 nTPM

Brain region

cerebellum: 5.9 nTPM
cerebral cortex: 1.7 nTPM
hippocampal formation: 1.4 nTPM
hypothalamus: 1 nTPM
white matter: 1 nTPM
midbrain: 0.8 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): 1.88
gnomAD pLI: 0
gnomAD missense Z: -0.1
DepMap mean gene effect: -0.03
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

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads SYNGR4 as an antibody target. Whether an autoantibody or antibody against SYNGR4 could matter depends on whether native SYNGR4 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

SYNGR4 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 SYNGR4 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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