This gene encodes a member of the nucleoporin family that shares 87% sequence identity with rat nucleoporin p58. The protein is localized to the nuclear rim and is a component of the nuclear pore complex (NPC). All molecules entering or leaving the nucleus either diffuse through or are actively transported by the NPC. Alternate transcriptional splice variants, encoding differen... See more...

Aliases for NUP58 Gene

Aliases for NUP58 Gene

  • Nucleoporin 58 2 3 5
  • Nucleoporin-Like Protein 1 3 4
  • Nucleoporin P58/P45 3 4
  • Nucleoporin Like 1 2 3
  • 58 KDa Nucleoporin 3 4
  • Nucleoporin 58kDa 2 3
  • NUPL1 3 4
  • KIAA0410 4
  • PRO2463 3
  • NUP45 3

External Ids for NUP58 Gene

Previous HGNC Symbols for NUP58 Gene

  • NUPL1

Summaries for NUP58 Gene

Entrez Gene Summary for NUP58 Gene

  • This gene encodes a member of the nucleoporin family that shares 87% sequence identity with rat nucleoporin p58. The protein is localized to the nuclear rim and is a component of the nuclear pore complex (NPC). All molecules entering or leaving the nucleus either diffuse through or are actively transported by the NPC. Alternate transcriptional splice variants, encoding different isoforms, have been characterized. [provided by RefSeq, Jul 2008]

GeneCards Summary for NUP58 Gene

NUP58 (Nucleoporin 58) is a Protein Coding gene. Among its related pathways are Metabolism of proteins and HIV Life Cycle.

UniProtKB/Swiss-Prot Summary for NUP58 Gene

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

Gene Wiki entry for NUP58 Gene

Additional gene information for NUP58 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for NUP58 Gene

Genomics for NUP58 Gene

GeneHancer (GH) Regulatory Elements for NUP58 Gene

Promoters and enhancers for NUP58 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH13J025300 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 509.1 +0.7 748 2.7 ZBTB40 EP300 TCF12 NRF1 POLR2G SP1 RBAK PHF8 ZFX ZBTB5 NUP58 ENSG00000260509 lnc-ATP8A2-2 lnc-NUP58-1 MTMR6
GH13J026219 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE CraniofacialAtlas 11 +920.7 920734 3.6 EP300 ZBTB40 ZNF217 NRF1 MYC POLR2G SP1 NCOR1 GTF2E2 PHF8 RNF6 ENSG00000277368 lnc-RNF6-4 NUP58 piR-48965-034
GH13J025286 Promoter/Enhancer 2.3 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 8.1 -14.5 -14483 3.2 ZNF217 EP300 CTCF SIN3A NRF1 TCF12 POLR2G PHF8 ZFX ZNF639 MTMR6 hsa-miR-5095-110 lnc-NUP58-4 NUP58 LOC105370121
GH13J025276 Enhancer 0.6 Ensembl dbSUPER 19.3 -23.8 -23784 3 HNRNPK FOS PKNOX1 HMBOX1 MTMR6 NUP58 ATP8A2 LINC00463 LINC01053 lnc-NUP58-4 LOC105370121
GH13J025316 Enhancer 0.9 Ensembl ENCODE dbSUPER 12.4 +17.5 17491 4 FOS JUN FOSL1 MITF ZNF366 ATF3 ZNF362 ATF2 USF2 PRDM1 MTMR6 NUP58 ATP8A2 piR-50437-131 piR-56133-063
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around NUP58 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for NUP58

Genomic Locations for NUP58 Gene

Genomic Locations for NUP58 Gene
chr13:25,301,084-25,349,800
(GRCh38/hg38)
Size:
48,717 bases
Orientation:
Plus strand
chr13:25,875,662-25,923,938
(GRCh37/hg19)
Size:
48,277 bases
Orientation:
Plus strand

Genomic View for NUP58 Gene

Genes around NUP58 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NUP58 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NUP58 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NUP58 Gene

Proteins for NUP58 Gene

  • Protein details for NUP58 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BVL2-NUP58_HUMAN
    Recommended name:
    Nucleoporin p58/p45
    Protein Accession:
    Q9BVL2
    Secondary Accessions:
    • A6NI12
    • B4DZJ1
    • O43160
    • Q5JRG2
    • Q5JRG5

    Protein attributes for NUP58 Gene

    Size:
    599 amino acids
    Molecular mass:
    60897 Da
    Quaternary structure:
    • Component of the p62 complex, a complex at least composed of NUP62, NUP54, and NUP58. Interacts with NUTF2. Interacts with SRP1-alpha and Importin p97 proteins when they are together, but not with SRP1-alpha protein alone (By similarity).
    Miscellaneous:
    • In rat, the p62 complex contains two different isoforms of NUP58. Isoform p45 has however not been isolated in human so far.
    SequenceCaution:
    • Sequence=BAA23706.2; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for NUP58 Gene

    Alternative splice isoforms for NUP58 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for NUP58 Gene

Post-translational modifications for NUP58 Gene

No data available for DME Specific Peptides for NUP58 Gene

Domains & Families for NUP58 Gene

Gene Families for NUP58 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Transporters

Protein Domains for NUP58 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for NUP58 Gene

GenScript: Design optimal peptide antigens:
  • Nucleoporin-like protein 1 (NUPL1_HUMAN)
  • Nucleoporin like 1 (Q5JRG1_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9BVL2

UniProtKB/Swiss-Prot:

NUP58_HUMAN :
  • Contains FG repeats. FG repeats are interaction sites for karyopherins (importins, exportins) and form probably an affinity gradient, guiding the transport proteins unidirectionally with their cargo through the NPC. FG repeat regions are highly flexible and lack ordered secondary structure. The overall conservation of FG repeats regarding exact sequence, spacing, and repeat unit length is limited.
  • Belongs to the NUP58 family.
Domain:
  • Contains FG repeats. FG repeats are interaction sites for karyopherins (importins, exportins) and form probably an affinity gradient, guiding the transport proteins unidirectionally with their cargo through the NPC. FG repeat regions are highly flexible and lack ordered secondary structure. The overall conservation of FG repeats regarding exact sequence, spacing, and repeat unit length is limited.
Family:
  • Belongs to the NUP58 family.
genes like me logo Genes that share domains with NUP58: view

Function for NUP58 Gene

Molecular function for NUP58 Gene

UniProtKB/Swiss-Prot Function:
Component of the nuclear pore complex, a complex required for the trafficking across the nuclear membrane.
GENATLAS Biochemistry:
nucleoporin,component of multiple RNA export pathway

Gene Ontology (GO) - Molecular Function for NUP58 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 17500595
GO:0008139 nuclear localization sequence binding IEA,IBA 21873635
GO:0017056 structural constituent of nuclear pore IEA,IBA 21873635
genes like me logo Genes that share ontologies with NUP58: view
genes like me logo Genes that share phenotypes with NUP58: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for NUP58

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for NUP58 Gene

Localization for NUP58 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NUP58 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. {ECO:0000250 UniProtKB:P70581}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for NUP58 gene
Compartment Confidence
nucleus 5
mitochondrion 3
cytosol 3
plasma membrane 2
cytoskeleton 1
endoplasmic reticulum 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for NUP58 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005635 nuclear envelope TAS --
GO:0005643 nuclear pore IEA,IBA 21873635
GO:0016020 membrane IEA --
GO:0031965 nuclear membrane IEA --
genes like me logo Genes that share ontologies with NUP58: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for NUP58 Gene

Pathways & Interactions for NUP58 Gene

PathCards logo

SuperPathways for NUP58 Gene

SuperPathway Contained pathways
1 Transport of the SLBP independent Mature mRNA
2 HIV Life Cycle
.45
3 Cell Cycle, Mitotic
.60
4 Mitotic Prophase
5 Influenza Viral RNA Transcription and Replication
genes like me logo Genes that share pathways with NUP58: view

Pathways by source for NUP58 Gene

Gene Ontology (GO) - Biological Process for NUP58 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006110 regulation of glycolytic process TAS --
GO:0006406 mRNA export from nucleus TAS --
GO:0006409 tRNA export from nucleus TAS --
GO:0006913 nucleocytoplasmic transport IEA --
GO:0015031 protein transport IEA --
genes like me logo Genes that share ontologies with NUP58: view

No data available for SIGNOR curated interactions for NUP58 Gene

Drugs & Compounds for NUP58 Gene

No Compound Related Data Available

Transcripts for NUP58 Gene

mRNA/cDNA for NUP58 Gene

3 REFSEQ mRNAs :
11 NCBI additional mRNA sequence :
14 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for NUP58

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for NUP58 Gene

No ASD Table

Relevant External Links for NUP58 Gene

GeneLoc Exon Structure for
NUP58

Expression for NUP58 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for NUP58

Evidence on tissue expression from TISSUES for NUP58 Gene

  • Nervous system(4.8)
  • Liver(4.2)
genes like me logo Genes that share expression patterns with NUP58: view

No data available for mRNA expression in normal human tissues , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for NUP58 Gene

Orthologs for NUP58 Gene

This gene was present in the common ancestor of animals.

Orthologs for NUP58 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia NUPL1 31 30
  • 99.72 (n)
OneToOne
dog
(Canis familiaris)
Mammalia NUPL1 31 30
  • 93.75 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Nupl1 17 31 30
  • 90.06 (n)
rat
(Rattus norvegicus)
Mammalia Nupl1 30
  • 89.91 (n)
cow
(Bos Taurus)
Mammalia NUPL1 31 30
  • 89.14 (n)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia NUPL1 31
  • 89 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia NUPL1 31
  • 87 (a)
OneToOne
chicken
(Gallus gallus)
Aves NUPL1 31 30
  • 83.19 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia NUPL1 31
  • 85 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia nupl1 30
  • 71.37 (n)
Str.19038 30
zebrafish
(Danio rerio)
Actinopterygii nupl1 31 30
  • 64.51 (n)
OneToOne
Dr.4435 30
fruit fly
(Drosophila melanogaster)
Insecta Nup58 31
  • 24 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea CSA.1035 31
  • 39 (a)
OneToOne
Species where no ortholog for NUP58 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for NUP58 Gene

ENSEMBL:
Gene Tree for NUP58 (if available)
TreeFam:
Gene Tree for NUP58 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for NUP58: view image

Paralogs for NUP58 Gene

Pseudogenes.org Pseudogenes for NUP58 Gene

genes like me logo Genes that share paralogs with NUP58: view

No data available for Paralogs for NUP58 Gene

Variants for NUP58 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for NUP58 Gene

SNP ID Clinical significance and condition Chr 13 pos Variation AA Info Type
778451 Benign: not provided 25,327,027(+) C/G SYNONYMOUS_VARIANT
rs11556093 - p.Ala34Thr
rs12871608 - p.Ser166Pro

Additional dbSNP identifiers (rs#s) for NUP58 Gene

Structural Variations from Database of Genomic Variants (DGV) for NUP58 Gene

Variant ID Type Subtype PubMed ID
esv2747161 CNV deletion 23290073
esv3582237 CNV gain 25503493
nsv435952 OTHER inversion 17901297
nsv561352 CNV loss 21841781
nsv974065 CNV duplication 23825009

Variation tolerance for NUP58 Gene

Residual Variation Intolerance Score: 69.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.56; 82.47% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for NUP58 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NUP58

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NUP58 Gene

Disorders for NUP58 Gene

Additional Disease Information for NUP58

No disorders were found for NUP58 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for NUP58 Gene

Publications for NUP58 Gene

  1. Prediction of the coding sequences of unidentified human genes. VIII. 78 new cDNA clones from brain which code for large proteins in vitro. (PMID: 9455477) Ishikawa K … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 1997) 2 3 4 54
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 54
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 54
  4. Histone Interaction Landscapes Visualized by Crosslinking Mass Spectrometry in Intact Cell Nuclei. (PMID: 30021884) Fasci D … Heck AJR (Molecular & cellular proteomics : MCP 2018) 3 54
  5. Estrogen-regulated feedback loop limits the efficacy of estrogen receptor-targeted breast cancer therapy. (PMID: 29987050) Xiao T … Brown M (Proceedings of the National Academy of Sciences of the United States of America 2018) 3 54

Products for NUP58 Gene

Sources for NUP58 Gene