Free for academic non-profit institutions. Other users need a Commercial license

Aliases for NUP54 Gene

Aliases for NUP54 Gene

  • Nucleoporin 54kDa 2 3 5
  • 54 KDa Nucleoporin 4
  • Nucleoporin 54kD 2

External Ids for NUP54 Gene

Previous GeneCards Identifiers for NUP54 Gene

  • GC04M076931
  • GC04M077225
  • GC04M077428
  • GC04M077494
  • GC04M077392
  • GC04M077035
  • GC04M072788

Summaries for NUP54 Gene

Entrez Gene Summary for NUP54 Gene

  • The nuclear envelope creates distinct nuclear and cytoplasmic compartments in eukaryotic cells. It consists of two concentric membranes perforated by nuclear pores, large protein complexes that form aqueous channels to regulate the flow of macromolecules between the nucleus and the cytoplasm. These complexes are composed of at least 100 different polypeptide subunits, many of which belong to the nucleoporin family. This gene encodes a member of the phe-gly (FG) repeat-containing nucleoporin subset. Multiple alternatively spliced transcript variants have been found for this gene. [provided by RefSeq, Jun 2013]

GeneCards Summary for NUP54 Gene

NUP54 (Nucleoporin 54kDa) is a Protein Coding gene. Among its related pathways are Cellular response to heat stress and Glycosaminoglycan metabolism. GO annotations related to this gene include nucleocytoplasmic transporter activity.

UniProtKB/Swiss-Prot for NUP54 Gene

  • Component of the nuclear pore complex, a complex required for the trafficking across the nuclear membrane.

Gene Wiki entry for NUP54 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NUP54 Gene

Genomics for NUP54 Gene

Regulatory Elements for NUP54 Gene

Enhancers for NUP54 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around NUP54 on UCSC Golden Path with GeneCards custom track

Promoters for NUP54 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around NUP54 on UCSC Golden Path with GeneCards custom track

Genomic Location for NUP54 Gene

76,114,659 bp from pter
76,148,515 bp from pter
33,857 bases
Minus strand

Genomic View for NUP54 Gene

Genes around NUP54 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NUP54 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NUP54 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NUP54 Gene

Proteins for NUP54 Gene

  • Protein details for NUP54 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Nucleoporin p54
    Protein Accession:
    Secondary Accessions:
    • B2RCK7
    • B4DT35
    • Q96EA7
    • Q9NVL5
    • Q9P0I1

    Protein attributes for NUP54 Gene

    507 amino acids
    Molecular mass:
    55435 Da
    Quaternary structure:
    • Component of the p62 complex, a complex composed of NUP62, NUP54, and the isoform p58 and isoform p45 of NUP58.
    • Sequence=BAA91735.1; Type=Frameshift; Positions=479; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for NUP54 Gene

    Alternative splice isoforms for NUP54 Gene


neXtProt entry for NUP54 Gene

Proteomics data for NUP54 Gene at MOPED

Post-translational modifications for NUP54 Gene

No data available for DME Specific Peptides for NUP54 Gene

Domains & Families for NUP54 Gene

Gene Families for NUP54 Gene

Protein Domains for NUP54 Gene

Suggested Antigen Peptide Sequences for NUP54 Gene

Graphical View of Domain Structure for InterPro Entry



  • Contains FG repeats.
  • Belongs to the NUP54 family.
  • Contains FG repeats.
  • Belongs to the NUP54 family.
genes like me logo Genes that share domains with NUP54: view

Function for NUP54 Gene

Molecular function for NUP54 Gene

UniProtKB/Swiss-Prot Function:
Component of the nuclear pore complex, a complex required for the trafficking across the nuclear membrane.
genes like me logo Genes that share phenotypes with NUP54: view

Animal Model Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for NUP54 Gene

Localization for NUP54 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NUP54 Gene

Nucleus, nuclear pore complex. Nucleus membrane; Peripheral membrane protein; Cytoplasmic side. Nucleus membrane; Peripheral membrane protein; Nucleoplasmic side. Note=Biased towards cytoplasmic side. Central region of the nuclear pore complex, within the transporter (By similarity). {ECO:0000250}.

Subcellular locations from

Jensen Localization Image for NUP54 Gene COMPARTMENTS Subcellular localization image for NUP54 gene
Compartment Confidence
nucleus 5
cytosol 2
mitochondrion 1

No data available for Gene Ontology (GO) - Cellular Components for NUP54 Gene

Pathways & Interactions for NUP54 Gene

SuperPathways for NUP54 Gene

Superpath Contained pathways
1 Regulation of Glucokinase by Glucokinase Regulatory Protein
2 Infectious disease
3 Cell Cycle, Mitotic
4 Mitotic Prophase
5 Influenza Viral RNA Transcription and Replication
genes like me logo Genes that share pathways with NUP54: view

Pathways by source for NUP54 Gene

Gene Ontology (GO) - Biological Process for NUP54 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005975 carbohydrate metabolic process TAS --
GO:0006409 tRNA export from nucleus TAS --
GO:0006605 protein targeting IEA --
GO:0006999 nuclear pore organization IBA --
GO:0007077 mitotic nuclear envelope disassembly TAS --
genes like me logo Genes that share ontologies with NUP54: view

No data available for SIGNOR curated interactions for NUP54 Gene

Drugs & Compounds for NUP54 Gene

No Compound Related Data Available

Transcripts for NUP54 Gene

Unigene Clusters for NUP54 Gene

Nucleoporin 54kDa:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for NUP54 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6a · 6b · 6c ^ 7a · 7b ^ 8a · 8b ^ 9 ^ 10a · 10b · 10c ^ 11 ^ 12a · 12b ^ 13a · 13b ^
SP1: - - - - -
SP2: - - - - - -
SP3: - - - - - -
SP4: - - - - - - - -
SP5: - -
SP6: - - - - -
SP7: - - - - - - - - - - - - - - - - - -
SP8: - - - - - - -
SP9: - -
SP10: - - - - -
SP11: -
SP12: - - -
SP13: - -
SP15: - - - - - - - -

ExUns: 14a · 14b · 14c · 14d

Relevant External Links for NUP54 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for NUP54 Gene

mRNA expression in normal human tissues for NUP54 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for NUP54 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (15.5) and Placenta (6.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for NUP54 Gene

SOURCE GeneReport for Unigene cluster for NUP54 Gene Hs.430435

genes like me logo Genes that share expression patterns with NUP54: view

Protein tissue co-expression partners for NUP54 Gene

- Elite partner

Primer Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for NUP54 Gene

Orthologs for NUP54 Gene

This gene was present in the common ancestor of animals.

Orthologs for NUP54 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia NUP54 35
  • 93.25 (n)
  • 96.95 (a)
-- 36
  • 92 (a)
NUP54 36
  • 92 (a)
(Canis familiaris)
Mammalia NUP54 35
  • 91.29 (n)
  • 94.12 (a)
NUP54 36
  • 96 (a)
(Mus musculus)
Mammalia Nup54 35
  • 87.87 (n)
  • 96.08 (a)
Nup54 16
Nup54 36
  • 95 (a)
(Pan troglodytes)
Mammalia NUP54 35
  • 99.71 (n)
  • 99.78 (a)
NUP54 36
  • 100 (a)
(Rattus norvegicus)
Mammalia Nup54 35
  • 88.16 (n)
  • 96.08 (a)
(Monodelphis domestica)
Mammalia NUP54 36
  • 92 (a)
(Ornithorhynchus anatinus)
Mammalia NUP54 36
  • 91 (a)
(Gallus gallus)
Aves NUP54 35
  • 80.02 (n)
  • 91 (a)
NUP54 36
  • 83 (a)
(Anolis carolinensis)
Reptilia NUP54 36
  • 86 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia nup54 35
  • 75.29 (n)
  • 83.99 (a)
Str.1826 35
African clawed frog
(Xenopus laevis)
Amphibia MGC68541 35
(Danio rerio)
Actinopterygii nup54 35
  • 62.09 (n)
  • 70.1 (a)
wufp63g06 35
NUP54 36
  • 46 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG8831 37
  • 39 (a)
Nup54 35
  • 49.06 (n)
  • 40.83 (a)
Nup54 36
  • 31 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP006031 35
  • 48.26 (n)
  • 40.21 (a)
(Caenorhabditis elegans)
Secernentea npp-1 36
  • 21 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 47 (a)
-- 36
  • 42 (a)
Species with no ortholog for NUP54:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for NUP54 Gene

Gene Tree for NUP54 (if available)
Gene Tree for NUP54 (if available)

Paralogs for NUP54 Gene

(1) SIMAP similar genes for NUP54 Gene using alignment to 7 proteins:

genes like me logo Genes that share paralogs with NUP54: view

No data available for Paralogs for NUP54 Gene

Variants for NUP54 Gene

Sequence variations from dbSNP and Humsavar for NUP54 Gene

SNP ID Clin Chr 04 pos Sequence Context AA Info Type
rs4730 -- 76,114,975(-) CAGAA(C/G)AAACT nc-transcript-variant, utr-variant-3-prime
rs9652 -- 76,114,761(+) AAGTA(A/G)TTTTG nc-transcript-variant, utr-variant-3-prime
rs10654 -- 76,114,742(+) AATGG(A/T)TGCAA nc-transcript-variant, utr-variant-3-prime
rs894254 -- 76,146,281(+) AATAC(C/T)AACAA intron-variant, upstream-variant-2KB
rs735696 -- 76,145,980(+) TCACC(C/T)ACAGT intron-variant, utr-variant-5-prime

Structural Variations from Database of Genomic Variants (DGV) for NUP54 Gene

Variant ID Type Subtype PubMed ID
nsv7363 OTHER Inversion 18451855
nsv470047 CNV Gain 18288195
nsv461558 CNV Gain 19166990
esv275315 CNV Gain+Loss 21479260

Variation tolerance for NUP54 Gene

Residual Variation Intolerance Score: 35.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 9.81; 89.55% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for NUP54 Gene

Disorders for NUP54 Gene

Relevant External Links for NUP54

Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for NUP54 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for NUP54 Gene

Publications for NUP54 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 67
  2. Molecular and functional characterization of the p62 complex, an assembly of nuclear pore complex glycoproteins. (PMID: 8707840) Hu T. … Gerace L. (J. Cell Biol. 1996) 2 3
  3. Interactions of the Antiviral Factor Interferon Gamma-Inducible Protein 16 (IFI16) Mediate Immune Signaling and Herpes Simplex Virus-1 Immunosuppression. (PMID: 25693804) Diner B.A. … Cristea I.M. (Mol. Cell Proteomics 2015) 3
  4. Temporal proteomics of NGF-TrkA signaling identifies an inhibitory role for the E3 ligase Cbl-b in neuroblastoma cell differentiation. (PMID: 25921289) Emdal K.B. … Olsen J.V. (Sci Signal 2015) 3
  5. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3

Products for NUP54 Gene

Sources for NUP54 Gene