Seroatlas · Human Serome Atlas

SYNGR1

Synaptogyrin-1

Also known as: SNG1_HUMAN

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

Protein identityUniProt · HPA

UniProt accession: O43759
Gene: SYNGR1
Ensembl: ENSG00000100321
Chromosome: 22
Canonical length: 233 aa
Protein class: Predicted membrane proteins
Subcellular location: Cytosol

OverviewNCBI Gene

This gene encodes an integral membrane protein associated with presynaptic vesicles in neuronal cells. The exact function of this protein is unclear, but studies of a similar murine protein suggest that it functions in synaptic plasticity without being required for synaptic transmission. The gene product belongs to the synaptogyrin gene family. Three alternatively spliced variants encoding three different isoforms have been identified. [provided by RefSeq, Jul 2008]

Canonical amino-acid sequenceUniProt

233 residues, UniProt reviewed canonical sequence.

>O43759|SYNGR1
     1  MEGGAYGAGK AGGAFDPYTL VRQPHTILRV VSWLFSIVVF GSIVNEGYLN SASEGEEFCI
    61  YNRNPNACSY GVAVGVLAFL TCLLYLALDV YFPQISSVKD RKKAVLSDIG VSAFWAFLWF
   121  VGFCYLANQW QVSKPKDNPL NEGTDAARAA IAFSFFSIFT WAGQAVLAFQ RYQIGADSAL
   181  FSQDYMDPSQ DSSMPYAPYV EPTGPDPAGM GGTYQQPANT FDTEPQGYQS QGY

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against SYNGR1 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): 0.39
Highest tissue expression: 225 nTPM

Expression across tissuesHPA

Tissue

cerebellum: 225 nTPM
cerebral cortex: 160 nTPM
choroid plexus: 129 nTPM
bone marrow: 87 nTPM
hippocampal formation: 77 nTPM
hypothalamus: 68 nTPM

Single-cell type

esophageal apical cells: 431 nCPM
erythrocyte progenitors: 388 nCPM
esophageal suprabasal cells: 203 nCPM
melanocytes: 193 nCPM
retinal bipolar cells: 180 nCPM
late spermatids: 139 nCPM

Immune cell

myeloid DC: 45 nTPM
classical monocyte: 39 nTPM
plasmacytoid DC: 33 nTPM
gdT-cell: 31 nTPM
total PBMC: 18 nTPM
naive CD8 T-cell: 15 nTPM

Brain region

cerebral cortex: 340 nTPM
hippocampal formation: 263 nTPM
basal ganglia: 255 nTPM
white matter: 225 nTPM
cerebellum: 224 nTPM
thalamus: 216 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): 0.64
gnomAD pLI: 0.45
gnomAD missense Z: 0.42
DepMap mean gene effect: -0.04
DepMap dependency class: none

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 5% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads SYNGR1 as an antibody target. Whether an autoantibody or antibody against SYNGR1 could matter depends on whether native SYNGR1 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

SYNGR1 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 SYNGR1 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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