The protein encoded by this gene is a core component of box C/D small nucleolar ribonucleoproteins. Some box C/D small nucleolar RNAs (snoRNAs), such as U3, U8, and U14, are dependent upon the encoded protein for their synthesis. This protein is SUMOylated, which is necessary for high affinity binding to snoRNAs. [provided by RefSeq, Nov 2015] See more...

Aliases for NOP58 Gene

Aliases for NOP58 Gene

  • NOP58 Ribonucleoprotein 2 3 5
  • Nucleolar Protein 58 3 4
  • Nucleolar Protein 5 3 4
  • NOP5 3 4
  • NOP58 Ribonucleoprotein Homolog (Yeast) 2
  • NOP58 Ribonucleoprotein Homolog 3
  • Nucleolar Protein NOP5/NOP58 3
  • NOP5/NOP58 3
  • HSPC120 3
  • NOL5 4

External Ids for NOP58 Gene

Previous GeneCards Identifiers for NOP58 Gene

  • GC02P202839
  • GC02P203130
  • GC02P194979

Summaries for NOP58 Gene

Entrez Gene Summary for NOP58 Gene

  • The protein encoded by this gene is a core component of box C/D small nucleolar ribonucleoproteins. Some box C/D small nucleolar RNAs (snoRNAs), such as U3, U8, and U14, are dependent upon the encoded protein for their synthesis. This protein is SUMOylated, which is necessary for high affinity binding to snoRNAs. [provided by RefSeq, Nov 2015]

GeneCards Summary for NOP58 Gene

NOP58 (NOP58 Ribonucleoprotein) is a Protein Coding gene. Diseases associated with NOP58 include Autosomal Dominant Non-Syndromic Intellectual Disability 1 and Dyskeratosis Congenita. Among its related pathways are Metabolism of proteins and rRNA processing in the nucleus and cytosol. Gene Ontology (GO) annotations related to this gene include snoRNA binding. An important paralog of this gene is NOP56.

UniProtKB/Swiss-Prot Summary for NOP58 Gene

  • Required for 60S ribosomal subunit biogenesis (By similarity). Core component of box C/D small nucleolar ribonucleoprotein (snoRNP) particles. Required for the biogenesis of box C/D snoRNAs such as U3, U8 and U14 snoRNAs.

Gene Wiki entry for NOP58 Gene

Additional gene information for NOP58 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for NOP58 Gene

Genomics for NOP58 Gene

GeneHancer (GH) Regulatory Elements for NOP58 Gene

Promoters and enhancers for NOP58 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around NOP58 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for NOP58

Top Transcription factor binding sites by QIAGEN in the NOP58 gene promoter:
  • ATF-2
  • c-Jun
  • CREB
  • deltaCREB

Genomic Locations for NOP58 Gene

Genomic Locations for NOP58 Gene
chr2:202,265,736-202,303,661
(GRCh38/hg38)
Size:
37,926 bases
Orientation:
Plus strand
chr2:203,130,439-203,168,389
(GRCh37/hg19)
Size:
37,951 bases
Orientation:
Plus strand

Genomic View for NOP58 Gene

Genes around NOP58 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
NOP58 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for NOP58 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NOP58 Gene

Proteins for NOP58 Gene

  • Protein details for NOP58 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y2X3-NOP58_HUMAN
    Recommended name:
    Nucleolar protein 58
    Protein Accession:
    Q9Y2X3
    Secondary Accessions:
    • Q53SA4
    • Q6PK08
    • Q9P036
    • Q9UFN3

    Protein attributes for NOP58 Gene

    Size:
    529 amino acids
    Molecular mass:
    59578 Da
    Quaternary structure:
    • Core component of box C/D small nucleolar ribonucleoprotein (snoRNP) particles; the core proteins SNU13, NOP56, NOP58 and FBL assemble stepwise onto the snoRNA. Interacts with NOLC1/Nopp140. Interacts with NUFIP1, RUVBL1 AND RUVBL2; RUVBL1:RUVBL2 seem to bridge the association of NOP58 with NUFIP1. Interacts with PIH1D1 (PubMed:17636026).

neXtProt entry for NOP58 Gene

Post-translational modifications for NOP58 Gene

  • Sumoylation is essential for high-affinity binding to snoRNAs.
  • Ubiquitination at Lys206, Lys221, Lys310, Lys323, Lys337, and Lys365
  • Modification sites at PhosphoSitePlus

Other Protein References for NOP58 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for NOP58 Gene

Domains & Families for NOP58 Gene

Gene Families for NOP58 Gene

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

Protein Domains for NOP58 Gene

Blocks:
  • Pre-mRNA processing ribonucleoprotein, binding region
  • NOP5, N-terminal
  • NOSIC
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for NOP58 Gene

GenScript: Design optimal peptide antigens:
  • Nucleolar protein 5 (NOP58_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9Y2X3

UniProtKB/Swiss-Prot:

NOP58_HUMAN :
  • Belongs to the NOP5/NOP56 family.
Family:
  • Belongs to the NOP5/NOP56 family.
genes like me logo Genes that share domains with NOP58: view

Function for NOP58 Gene

Molecular function for NOP58 Gene

UniProtKB/Swiss-Prot Function:
Required for 60S ribosomal subunit biogenesis (By similarity). Core component of box C/D small nucleolar ribonucleoprotein (snoRNP) particles. Required for the biogenesis of box C/D snoRNAs such as U3, U8 and U14 snoRNAs.

Phenotypes From GWAS Catalog for NOP58 Gene

Gene Ontology (GO) - Molecular Function for NOP58 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001094 TFIID-class transcription factor complex binding IPI 17636026
GO:0003723 RNA binding HDA 22658674
GO:0005515 protein binding IPI 17636026
GO:0030515 snoRNA binding IBA,IDA 17636026
GO:0051117 ATPase binding IPI 17636026
genes like me logo Genes that share ontologies with NOP58: view
genes like me logo Genes that share phenotypes with NOP58: view

Animal Model Products

CRISPR Products

miRNA for NOP58 Gene

miRTarBase miRNAs that target NOP58

Clone Products

  • Addgene plasmids for NOP58

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for NOP58 Gene

Localization for NOP58 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NOP58 Gene

Nucleus, nucleolus. Nucleus, nucleoplasm.

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 NOP58 gene
Compartment Confidence
nucleus 5
cytosol 5
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
peroxisome 0

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoli fibrillar center (4)
  • Nucleoplasm (4)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for NOP58 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001650 fibrillar center IDA --
GO:0005634 nucleus IDA --
GO:0005654 nucleoplasm TAS --
GO:0005730 nucleolus TAS,IDA 10925205
GO:0005732 small nucleolar ribonucleoprotein complex IDA 17636026
genes like me logo Genes that share ontologies with NOP58: view

Pathways & Interactions for NOP58 Gene

genes like me logo Genes that share pathways with NOP58: view

Gene Ontology (GO) - Biological Process for NOP58 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006364 rRNA processing TAS 10925205
GO:0042254 ribosome biogenesis IEA --
GO:0048254 snoRNA localization IMP 17636026
genes like me logo Genes that share ontologies with NOP58: view

No data available for SIGNOR curated interactions for NOP58 Gene

Drugs & Compounds for NOP58 Gene

No Compound Related Data Available

Transcripts for NOP58 Gene

mRNA/cDNA for NOP58 Gene

1 REFSEQ mRNAs :
13 NCBI additional mRNA sequence :
10 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Clone Products

  • Addgene plasmids for NOP58

Alternative Splicing Database (ASD) splice patterns (SP) for NOP58 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5a · 5b · 5c ^ 6a · 6b ^ 7a · 7b ^ 8 ^ 9a · 9b ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^
SP1: - - - - - -
SP2: - - - - - - - -
SP3: - - -
SP4: - -
SP5: - - - -
SP6: - - -
SP7: - - - -
SP8:
SP9:

ExUns: 17a · 17b
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:

Relevant External Links for NOP58 Gene

GeneLoc Exon Structure for
NOP58

Expression for NOP58 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for NOP58 Gene

Protein differential expression in normal tissues from HIPED for NOP58 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (10.6), CD8 Tcells (7.5), Tlymphocyte (6.9), and Blymphocyte (6.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for NOP58 Gene



Protein tissue co-expression partners for NOP58 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for NOP58

SOURCE GeneReport for Unigene cluster for NOP58 Gene:

Hs.471104

mRNA Expression by UniProt/SwissProt for NOP58 Gene:

Q9Y2X3-NOP58_HUMAN
Tissue specificity: Ubiquitous.

Evidence on tissue expression from TISSUES for NOP58 Gene

  • Nervous system(4.5)
  • Blood(4.4)
  • Skin(4.4)
  • Liver(4.3)
  • Adrenal gland(2)
  • Pancreas(2)
  • Stomach(2)
genes like me logo Genes that share expression patterns with NOP58: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for NOP58 Gene

Orthologs for NOP58 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for NOP58 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia NOP58 31 30
  • 99.68 (n)
OneToOne
cow
(Bos Taurus)
Mammalia NOP58 31 30
  • 91.68 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Nop58 17 31 30
  • 91.3 (n)
dog
(Canis familiaris)
Mammalia NOP58 31 30
  • 91.18 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Nop58 30
  • 90.55 (n)
oppossum
(Monodelphis domestica)
Mammalia NOP58 31
  • 82 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia NOP58 31
  • 79 (a)
OneToOne
chicken
(Gallus gallus)
Aves NOP58 31 30
  • 76.55 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia NOP58 31
  • 83 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia nop58 30
  • 70.26 (n)
MGC75641 30
African clawed frog
(Xenopus laevis)
Amphibia LOC398558 30
zebrafish
(Danio rerio)
Actinopterygii nop58 31 30
  • 71.6 (n)
OneToOne
Dr.282 30
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.14025 30
fruit fly
(Drosophila melanogaster)
Insecta nop5 31 30
  • 61.17 (n)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP002171 30
  • 59.35 (n)
worm
(Caenorhabditis elegans)
Secernentea nol-5 31 30
  • 59.09 (n)
OneToOne
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F08613g 30
  • 55.09 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes NOP58 33 31 30
  • 54.96 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AFR328C 30
  • 54.27 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT3G05060 30
  • 60.24 (n)
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.2939 30
rice
(Oryza sativa)
Liliopsida Os03g0350300 30
  • 61.79 (n)
wheat
(Triticum aestivum)
Liliopsida Ta.721 30
corn
(Zea mays)
Liliopsida Zm.10383 30
sea squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 61 (a)
OneToOne
Cin.14972 30
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPAC23G3.06 30
  • 58.12 (n)
bread mold
(Neurospora crassa)
Ascomycetes NCU03396 30
  • 52.81 (n)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.14972 30
Species where no ortholog for NOP58 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)

Evolution for NOP58 Gene

ENSEMBL:
Gene Tree for NOP58 (if available)
TreeFam:
Gene Tree for NOP58 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for NOP58: view image

Paralogs for NOP58 Gene

Paralogs for NOP58 Gene

(1) SIMAP similar genes for NOP58 Gene using alignment to 3 proteins:

  • NOP58_HUMAN
  • F8WED0_HUMAN
  • H7BZ72_HUMAN

Pseudogenes.org Pseudogenes for NOP58 Gene

genes like me logo Genes that share paralogs with NOP58: view

Variants for NOP58 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for NOP58 Gene

SNP ID Clinical significance and condition Chr 02 pos Variation AA Info Type
rs34458926 - p.Ala389Pro
rs34523815 - p.Thr508Pro
rs34748654 - p.Asn387Thr
rs35900977 - p.Asp400Ala

Additional dbSNP identifiers (rs#s) for NOP58 Gene

Structural Variations from Database of Genomic Variants (DGV) for NOP58 Gene

Variant ID Type Subtype PubMed ID
esv3593992 CNV loss 21293372

Variation tolerance for NOP58 Gene

Residual Variation Intolerance Score: 7.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.98; 20.18% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for NOP58 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
NOP58

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NOP58 Gene

Disorders for NOP58 Gene

MalaCards: The human disease database

(3) MalaCards diseases for NOP58 Gene - From: DISEASES

Disorder Aliases PubMed IDs
autosomal dominant non-syndromic intellectual disability 1
  • mrd1
dyskeratosis congenita
  • zinsser-cole-engman syndrome
autosomal dominant non-syndromic intellectual disability
  • autosomal dominant mental retardation
- elite association - COSMIC cancer census association via MalaCards
Search NOP58 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for NOP58

genes like me logo Genes that share disorders with NOP58: view

No data available for UniProtKB/Swiss-Prot and Genatlas for NOP58 Gene

Publications for NOP58 Gene

  1. Isolation and characterization of a novel PDGF-induced human gene. (PMID: 10925205) Nelson SA … LaRochelle WJ (Gene 2000) 2 3 4 54
  2. Human Nop5/Nop58 is a component common to the box C/D small nucleolar ribonucleoproteins. (PMID: 10606270) Lyman SK … Baserga SJ (RNA (New York, N.Y.) 1999) 2 3 4 54
  3. A proteomic screen for nucleolar SUMO targets shows SUMOylation modulates the function of Nop5/Nop58. (PMID: 20797632) Westman BJ … Lamond AI (Molecular cell 2010) 3 4 54
  4. Evidence that the AAA+ proteins TIP48 and TIP49 bridge interactions between 15.5K and the related NOP56 and NOP58 proteins during box C/D snoRNP biogenesis. (PMID: 19620283) McKeegan KS … Watkins NJ (Molecular and cellular biology 2009) 3 4 54
  5. A dynamic scaffold of pre-snoRNP factors facilitates human box C/D snoRNP assembly. (PMID: 17636026) McKeegan KS … Watkins NJ (Molecular and cellular biology 2007) 3 4 54

Products for NOP58 Gene

Sources for NOP58 Gene