Seroatlas · Human Serome Atlas

VPS52

Vacuolar protein sorting-associated protein 52 homolog

Also known as: ARE1, SACM2L, VPS52_HUMAN

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

Protein identityUniProt · HPA

UniProt accession: Q8N1B4
Gene: VPS52
Ensembl: ENSG00000223501
Chromosome: 6
Canonical length: 723 aa
Protein class: Predicted intracellular proteins

OverviewNCBI Gene

This gene encodes a protein that is similar to the yeast suppressor of actin mutations 2 gene. The yeast protein forms a subunit of the tetrameric Golgi-associated retrograde protein complex that is involved in vesicle trafficking from from both early and late endosomes, back to the trans-Golgi network. This gene is located on chromosome 6 in a head-to-head orientation with the gene encoding ribosomal protein S18. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jan 2014]

Canonical amino-acid sequenceUniProt

723 residues, UniProt reviewed canonical sequence.

>Q8N1B4|VPS52
     1  MAAAATMAAA ARELVLRAGT SDMEEEEGPL AGGPGLQEPL QLGELDITSD EFILDEVDVH
    61  IQANLEDELV KEALKTGVDL RHYSKQVELE LQQIEQKSIR DYIQESENIA SLHNQITACD
   121  AVLERMEQML GAFQSDLSSI SSEIRTLQEQ SGAMNIRLRN RQAVRGKLGE LVDGLVVPSA
   181  LVTAILEAPV TEPRFLEQLQ ELDAKAAAVR EQEARGTAAC ADVRGVLDRL RVKAVTKIRE
   241  FILQKIYSFR KPMTNYQIPQ TALLKYRFFY QFLLGNERAT AKEIRDEYVE TLSKIYLSYY
   301  RSYLGRLMKV QYEEVAEKDD LMGVEDTAKK GFFSKPSLRS RNTIFTLGTR GSVISPTELE
   361  APILVPHTAQ RGEQRYPFEA LFRSQHYALL DNSCREYLFI CEFFVVSGPA AHDLFHAVMG
   421  RTLSMTLKHL DSYLADCYDA IAVFLCIHIV LRFRNIAAKR DVPALDRYWE QVLALLWPRF
   481  ELILEMNVQS VRSTDPQRLG GLDTRPHYIT RRYAEFSSAL VSINQTIPNE RTMQLLGQLQ
   541  VEVENFVLRV AAEFSSRKEQ LVFLINNYDM MLGVLMERAA DDSKEVESFQ QLLNARTQEF
   601  IEELLSPPFG GLVAFVKEAE ALIERGQAER LRGEEARVTQ LIRGFGSSWK SSVESLSQDV
   661  MRSFTNFRNG TSIIQGALTQ LIQLYHRFHR VLSQPQLRAL PARAELINIH HLMVELKKHK
   721  PNF

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against VPS52 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: 0
Mean surface accessibility (rSASA): 0.33
Highest tissue expression: 36 nTPM

Expression across tissuesHPA

Tissue

skeletal muscle: 36 nTPM
esophagus: 28 nTPM
cerebellum: 27 nTPM
thyroid gland: 27 nTPM
adrenal gland: 26 nTPM
skin: 26 nTPM

Single-cell type

oligodendrocytes: 27 nCPM
bergmann glia: 27 nCPM
astrocytes: 26 nCPM
microglia: 23 nCPM
distal convoluted tubule cells: 23 nCPM
podocytes: 21 nCPM

Immune cell

basophil: 5.8 nTPM
NK-cell: 4.9 nTPM
classical monocyte: 4.5 nTPM
T-reg: 4.5 nTPM
eosinophil: 4.1 nTPM
memory CD8 T-cell: 4.1 nTPM

Brain region

choroid plexus: 13 nTPM
hypothalamus: 9.5 nTPM
medulla oblongata: 9.4 nTPM
pons: 8.1 nTPM
white matter: 7.2 nTPM
thalamus: 6.9 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): 0.5
gnomAD pLI: 0
gnomAD missense Z: 2.5
DepMap mean gene effect: -0.59
DepMap dependency class: common

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 8% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

ectodermal cell differentiation
endocytic recycling
Golgi to vacuole transport
lysosomal transport
protein targeting
protein transport
retrograde transport, endosome to Golgi
vesicle-mediated cholesterol transport
embryonic ectodermal digestive tract development

Molecular functions

syntaxin binding

Cellular components

Protein domainsUniProt · Pfam · InterPro

Vps52
Vps52, coiled-coil domain
Vps52, C-terminal
Vps52/Sac2 family, coiled-coil
Vps52, C-terminal

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of VPS52 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 VPS52 as an antibody target. Whether an autoantibody or antibody against VPS52 could matter depends on whether native VPS52 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

VPS52 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 VPS52 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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