Seroatlas · Human Serome Atlas

CLPTM1

Putative lipid scramblase CLPTM1

Also known as: CLPT1_HUMAN

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

Protein identityUniProt · HPA

UniProt accession
O96005
Gene
CLPTM1
Ensembl
ENSG00000104853
Chromosome
19
Canonical length
669 aa
Protein class
Predicted intracellular proteins, Predicted membrane proteins, Transporters
Subcellular location
Endoplasmic reticulum

OverviewNCBI Gene

Predicted to enable GABA receptor binding activity. Predicted to be involved in regulation of T cell differentiation in thymus. Located in membrane. [provided by Alliance of Genome Resources, Apr 2025]

Canonical amino-acid sequenceUniProt

669 residues, UniProt reviewed canonical sequence.

>O96005|CLPTM1
     1  MAAAQEADGA RSAVVAAGGG SSGQVTSNGS IGRDPPAETQ PQNPPAQPAP NAWQVIKGVL
    61  FRIFIIWAIS SWFRRGPAPQ DQAGPGGAPR VASRNLFPKD TLMNLHVYIS EHEHFTDFNA
   121  TSALFWEQHD LVYGDWTSGE NSDGCYEHFA ELDIPQSVQQ NGSIYIHVYF TKSGFHPDPR
   181  QKALYRRLAT VHMSRMINKY KRRRFQKTKN LLTGETEADP EMIKRAEDYG PVEVISHWHP
   241  NITINIVDDH TPWVKGSVPP PLDQYVKFDA VSGDYYPIIY FNDYWNLQKD YYPINESLAS
   301  LPLRVSFCPL SLWRWQLYAA QSTKSPWNFL GDELYEQSDE EQDSVKVALL ETNPYLLALT
   361  IIVSIVHSVF EFLAFKNDIQ FWNSRQSLEG LSVRSVFFGV FQSFVVLLYI LDNETNFVVQ
   421  VSVFIGVLID LWKITKVMDV RLDREHRVAG IFPRLSFKDK STYIESSTKV YDDMAFRYLS
   481  WILFPLLGCY AVYSLLYLEH KGWYSWVLSM LYGFLLTFGF ITMTPQLFIN YKLKSVAHLP
   541  WRMLTYKALN TFIDDLFAFV IKMPVMYRIG CLRDDVVFFI YLYQRWIYRV DPTRVNEFGM
   601  SGEDPTAAAP VAEVPTAAGA LTPTPAPTTT TATREEASTS LPTKPTQGAS SASEPQEAPP
   661  KPAEDKKKD

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against CLPTM1 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
5
Mean surface accessibility (rSASA)
0.37
Highest tissue expression
151 nTPM

Expression across tissuesHPA

Tissue

  • basal ganglia: 151 nTPM
  • adrenal gland: 141 nTPM
  • cerebral cortex: 128 nTPM
  • liver: 121 nTPM
  • amygdala: 113 nTPM
  • hippocampal formation: 104 nTPM

Single-cell type

  • syncytiotrophoblasts: 164 nCPM
  • esophageal apical cells: 139 nCPM
  • cytotrophoblasts: 122 nCPM
  • extravillous trophoblasts: 121 nCPM
  • enterocytes: 112 nCPM
  • esophageal suprabasal cells: 100 nCPM

Immune cell

  • non-classical monocyte: 50 nTPM
  • eosinophil: 44 nTPM
  • plasmacytoid DC: 39 nTPM
  • intermediate monocyte: 38 nTPM
  • memory CD8 T-cell: 37 nTPM
  • classical monocyte: 28 nTPM

Brain region

  • cerebral cortex: 186 nTPM
  • midbrain: 171 nTPM
  • thalamus: 171 nTPM
  • medulla oblongata: 165 nTPM
  • basal ganglia: 163 nTPM
  • amygdala: 159 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)
0.33
gnomAD pLI
0.96
gnomAD missense Z
2.93
DepMap mean gene effect
-0.06
DepMap dependency class
selective

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

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of CLPTM1 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 CLPTM1 as an antibody target. Whether an autoantibody or antibody against CLPTM1 could matter depends on whether native CLPTM1 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

CLPTM1 is annotated at the cell surface, where native CLPTM1 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 CLPTM1 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/CLPTM1. 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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