Seroatlas · Human Serome Atlas

CLSTN1

Calsyntenin-1

Also known as: CDHR12, CSTN1, CSTN1_HUMAN, KIAA0911

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

Protein identityUniProt · HPA

UniProt accession
O94985
Gene
CLSTN1
Ensembl
ENSG00000171603
Chromosome
1
Canonical length
981 aa
Protein class
Cancer-related genes, Plasma proteins, Predicted membrane proteins

OverviewNCBI Gene

This gene is a member of the calsyntenin family, a subset of the cadherin superfamily. The encoded transmembrane protein, also known as alcadein-alpha, is thought to bind to kinesin-1 motors to mediate the axonal anterograde transport of certain types of vesicle. Amyloid precursor protein (APP) is trafficked via these vesicles and so this protein is being investigated to see how it might contribute to the mechanisms underlying Alzheimer's disease. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Nov 2014]

Canonical amino-acid sequenceUniProt

981 residues, UniProt reviewed canonical sequence.

>O94985|CLSTN1
     1  MLRRPAPALA PAARLLLAGL LCGGGVWAAR VNKHKPWLEP TYHGIVTEND NTVLLDPPLI
    61  ALDKDAPLRF AESFEVTVTK EGEICGFKIH GQNVPFDAVV VDKSTGEGVI RSKEKLDCEL
   121  QKDYSFTIQA YDCGKGPDGT NVKKSHKATV HIQVNDVNEY APVFKEKSYK ATVIEGKQYD
   181  SILRVEAVDA DCSPQFSQIC SYEIITPDVP FTVDKDGYIK NTEKLNYGKE HQYKLTVTAY
   241  DCGKKRATED VLVKISIKPT CTPGWQGWNN RIEYEPGTGA LAVFPNIHLE TCDEPVASVQ
   301  ATVELETSHI GKGCDRDTYS EKSLHRLCGA AAGTAELLPS PSGSLNWTMG LPTDNGHDSD
   361  QVFEFNGTQA VRIPDGVVSV SPKEPFTISV WMRHGPFGRK KETILCSSDK TDMNRHHYSL
   421  YVHGCRLIFL FRQDPSEEKK YRPAEFHWKL NQVCDEEWHH YVLNVEFPSV TLYVDGTSHE
   481  PFSVTEDYPL HPSKIETQLV VGACWQEFSG VENDNETEPV TVASAGGDLH MTQFFRGNLA
   541  GLTLRSGKLA DKKVIDCLYT CKEGLDLQVL EDSGRGVQIQ AHPSQLVLTL EGEDLGELDK
   601  AMQHISYLNS RQFPTPGIRR LKITSTIKCF NEATCISVPP VDGYVMVLQP EEPKISLSGV
   661  HHFARAASEF ESSEGVFLFP ELRIISTITR EVEPEGDGAE DPTVQESLVS EEIVHDLDTC
   721  EVTVEGEELN HEQESLEVDM ARLQQKGIEV SSSELGMTFT GVDTMASYEE VLHLLRYRNW
   781  HARSLLDRKF KLICSELNGR YISNEFKVEV NVIHTANPME HANHMAAQPQ FVHPEHRSFV
   841  DLSGHNLANP HPFAVVPSTA TVVIVVCVSF LVFMIILGVF RIRAAHRRTM RDQDTGKENE
   901  MDWDDSALTI TVNPMETYED QHSSEEEEEE EEEEESEDGE EEDDITSAES ESSEEEEGEQ
   961  GDPQNATRQQ QLEWDDSTLS Y

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against CLSTN1 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
Cell surface
Secreted
No
Transmembrane segments
1
Mean surface accessibility (rSASA)
0.37
Highest tissue expression
169 nTPM

Expression across tissuesHPA

Tissue

  • cerebellum: 169 nTPM
  • cerebral cortex: 153 nTPM
  • choroid plexus: 104 nTPM
  • retina: 103 nTPM
  • skin: 79 nTPM
  • endometrium: 77 nTPM

Single-cell type

  • cone photoreceptor cells: 615 nCPM
  • rod photoreceptor cells: 376 nCPM
  • choroid plexus epithelial cells: 293 nCPM
  • retinal bipolar cells: 261 nCPM
  • lacrimal acinar cells: 235 nCPM
  • retinal horizontal cells: 214 nCPM

Immune cell

  • basophil: 6.3 nTPM
  • gdT-cell: 3.1 nTPM
  • eosinophil: 2.4 nTPM
  • memory CD8 T-cell: 2.3 nTPM
  • memory CD4 T-cell: 1.9 nTPM
  • T-reg: 1.6 nTPM

Brain region

  • cerebral cortex: 532 nTPM
  • choroid plexus: 429 nTPM
  • basal ganglia: 371 nTPM
  • white matter: 340 nTPM
  • hippocampal formation: 339 nTPM
  • pons: 304 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)
0.31
gnomAD pLI
0.98
gnomAD missense Z
1.02
DepMap mean gene effect
-0.03
DepMap dependency class
selective

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 4% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of CLSTN1 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 CLSTN1 as an antibody target. Whether an autoantibody or antibody against CLSTN1 could matter depends on whether native CLSTN1 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

CLSTN1 is annotated at the cell surface, where native CLSTN1 is exposed to circulating antibodies and is a prime autoantibody target that could block, deplete, or overstimulate it.

Annotation status

The present source text does not explicitly label CLSTN1 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/CLSTN1. Study-independent annotations aggregated from UniProt, Human Protein Atlas, PubMed, IEDB, Pfam, InterPro, Gene Ontology, AlphaFold, gnomAD, DepMap, ClinVar, TCGA. Catalog release seroatlas-reviewed-human-uniprot-20260313.

Seroatlas is the reference for exploring autoantibody and antibody serology at the human-protein level: the autoreactome and human serome, multiplex serology (HuProt, HuScan, VirScan, PhIP-Seq).

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