Seroatlas · Human Serome Atlas

NUP50

Nuclear pore complex protein Nup50

Also known as: NPAP60L, NUP50_HUMAN

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

Protein identityUniProt · HPA

UniProt accession: Q9UKX7
Gene: NUP50
Ensembl: ENSG00000093000
Chromosome: 22
Canonical length: 468 aa
Protein class: Metabolic proteins, Plasma proteins, Predicted intracellular proteins, Transporters
Subcellular location: Nucleoplasm,Nuclear membrane

OverviewNCBI Gene

The nuclear pore complex is a massive structure that extends across the nuclear envelope, forming a gateway that regulates the flow of macromolecules between the nucleus and the cytoplasm. Nucleoporins are the main components of the nuclear pore complex in eukaryotic cells. The protein encoded by this gene is a member of the FG-repeat containing nucleoporins that functions as a soluble cofactor in importin-alpha:beta-mediated nuclear protein import. Pseudogenes of this gene are found on chromosomes 5, 6, and 14. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]

Canonical amino-acid sequenceUniProt

468 residues, UniProt reviewed canonical sequence.

>Q9UKX7|NUP50
     1  MAKRNAEKEL TDRNWDQEDE AEEVGTFSMA SEEVLKNRAI KKAKRRNVGF ESDTGGAFKG
    61  FKGLVVPSGG GRFSGFGSGA GGKPLEGLSN GNNITSAPPF ASAKAAADPK VAFGSLAANG
   121  PTTLVDKVSN PKTNGDSQQP SSSGLASSKA CVGNAYHKQL AALNCSVRDW IVKHVNTNPL
   181  CDLTPIFKDY EKYLANIEQQ HGNSGRNSES ESNKVAAETQ SPSLFGSTKL QQESTFLFHG
   241  NKTEDTPDKK MEVASEKKTD PSSLGATSAS FNFGKKVDSS VLGSLSSVPL TGFSFSPGNS
   301  SLFGKDTTQS KPVSSPFPTK PLEGQAEGDS GECKGGDEEE NDEPPKVVVT EVKEEDAFYS
   361  KKCKLFYKKD NEFKEKGIGT LHLKPTANQK TQLLVRADTN LGNILLNVLI PPNMPCTRTG
   421  KNNVLIVCVP NPPIDEKNAT MPVTMLIRVK TSEDADELHK ILLEKKDA

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against NUP50 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): 0.58
Highest tissue expression: 51 nTPM

Expression across tissuesHPA

Tissue

bone marrow: 51 nTPM
thymus: 43 nTPM
tonsil: 33 nTPM
lymph node: 32 nTPM
testis: 28 nTPM
spleen: 24 nTPM

Single-cell type

conjunctival goblet cells: 183 nCPM
esophageal apical cells: 165 nCPM
late spermatids: 141 nCPM
neutrophil progenitors: 135 nCPM
neutrophils: 123 nCPM
ocular epithelial cells: 107 nCPM

Immune cell

neutrophil: 93 nTPM
eosinophil: 81 nTPM
basophil: 55 nTPM
intermediate monocyte: 40 nTPM
classical monocyte: 39 nTPM
total PBMC: 34 nTPM

Brain region

cerebellum: 38 nTPM
cerebral cortex: 37 nTPM
choroid plexus: 37 nTPM
hypothalamus: 34 nTPM
white matter: 32 nTPM
thalamus: 32 nTPM

ReferencesPubMed · IEDB

Publications for NUP50 from three distinct lines of evidence, kept separate because they answer different questions: whether antibodies are directed at the protein, whether a B-cell epitope has been mapped on it, and whether a T-cell epitope has. Each is labelled with its source.

Reference: AutoantibodyPubMed

2 publications

Novel minor HLA DR associated antigens in type 1 diabetes.
2018 · Clin Immunol · RCR 0.3 · 7 citations
T cell and autoantibody recognition of nucleus-associated islet autoantigens in individuals with type 1 diabetes.
2025 · Diabetologia · 2 citations

Sources: PubMed — antigen-level antibody evidence from a custom retrieval. Records matching a controlled set of autoantibody terms (the MeSH descriptors Autoantibodies and Autoantigens, with title and abstract term variants) were obtained through NCBI E-utilities, and their titles and abstracts parsed for constructions that direct an antibody at a named protein rather than for co-occurrence. Captured names were resolved against UniProt nomenclature and each antigen adjudicated individually against the source text. Bibliographic records from PubMed and MeSH, U.S. National Library of Medicine; citation metrics from NIH iCite (Hutchins et al., PLoS Biology 2016). Titles link to PubMed; abstracts are not reproduced here. The NLM does not endorse this analysis.

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): 0.55
gnomAD pLI: 0.28
gnomAD missense Z: -0.07
DepMap mean gene effect: -0.59
DepMap dependency class: common

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

Cellular components

Protein domainsUniProt · Pfam · InterPro

Ran binding domain
PH-like domain superfamily
Ran binding protein RanBP1-like
RanBP1 domain
Nuclear pore complex, NUP2/50/61
NUP50 (Nucleoporin 50 kDa)

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of NUP50 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 NUP50 as an antibody target. Whether an autoantibody or antibody against NUP50 could matter depends on whether native NUP50 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

NUP50 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 NUP50 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Loading the interactive Seroatlas protein explorer...