Seroatlas · Human Serome Atlas

PYM1

Partner of Y14 and mago

Also known as: PYM, PYM1_HUMAN, WIBG

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

Protein identityUniProt · HPA

UniProt accession
Q9BRP8
Gene
PYM1
Ensembl
ENSG00000170473
Chromosome
12
Canonical length
204 aa
Protein class
Predicted intracellular proteins
Subcellular location
Nucleoplasm,Nucleoli,Cell Junctions,Cytosol

OverviewNCBI Gene

Enables ribosome binding activity. Involved in exon-exon junction complex disassembly; nuclear-transcribed mRNA catabolic process, nonsense-mediated decay; and positive regulation of translation. Located in cell junction; cytosol; and nuclear lumen. Part of exon-exon junction complex. [provided by Alliance of Genome Resources, Jul 2025]

Canonical amino-acid sequenceUniProt

204 residues, UniProt reviewed canonical sequence.

>Q9BRP8|PYM1
     1  MEAAGSPAAT ETGKYIASTQ RPDGTWRKQR RVKEGYVPQE EVPVYENKYV KFFKSKPELP
    61  PGLSPEATAP VTPSRPEGGE PGLSKTAKRN LKRKEKRRQQ QEKGEAEALS RTLDKVSLEE
   121  TAQLPSAPQG SRAAPTAASD QPDSAATTEK AKKIKNLKKK LRQVEELQQR IQAGEVSQPS
   181  KEQLEKLARR RALEEELEDL ELGL

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against PYM1 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
0
Mean surface accessibility (rSASA)
0.54
Highest tissue expression
70 nTPM

Expression across tissuesHPA

Tissue

  • esophagus: 70 nTPM
  • liver: 41 nTPM
  • skin: 40 nTPM
  • epididymis: 39 nTPM
  • tonsil: 37 nTPM
  • salivary gland: 32 nTPM

Single-cell type

  • esophageal apical cells: 487 nCPM
  • esophageal suprabasal cells: 196 nCPM
  • epididymal principal cells: 109 nCPM
  • migrating cytotrophoblasts: 101 nCPM
  • cytotrophoblasts: 99 nCPM
  • esophageal basal cells: 97 nCPM

Immune cell

  • T-reg: 180 nTPM
  • myeloid DC: 117 nTPM
  • memory CD4 T-cell: 98 nTPM
  • memory B-cell: 91 nTPM
  • intermediate monocyte: 91 nTPM
  • total PBMC: 84 nTPM

Brain region

  • choroid plexus: 20 nTPM
  • hypothalamus: 16 nTPM
  • pons: 15 nTPM
  • spinal cord: 15 nTPM
  • medulla oblongata: 15 nTPM
  • white matter: 15 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
gnomAD pLI
0.02
DepMap mean gene effect
-0.31
DepMap dependency class
selective

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 6% 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

  • WIBG, Mago-binding
  • WIBG, N-terminal domain superfamily
  • Partner of Y14 and mago
  • Mago binding

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of PYM1 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 PYM1 as an antibody target. Whether an autoantibody or antibody against PYM1 could matter depends on whether native PYM1 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

PYM1 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 PYM1 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/PYM1. 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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