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BUD23 Gene(Protein Coding)

BUD23, RRNA Methyltransferase And Ribosome Maturation Factor

GCID:
GC07P073684
GIFtS:
35
Genes Participants
UDN Logo

Aliases for BUD23 Gene

Aliases for BUD23 Gene

  • BUD23, RRNA Methyltransferase And Ribosome Maturation Factor 2 3 5
  • Metastasis-Related Methyltransferase 1 2 3 4
  • Williams-Beuren Syndrome Chromosomal Region 22 Protein 3 4
  • RRNA Methyltransferase And Ribosome Maturation Factor 3 4
  • Williams-Beuren Syndrome Chromosome Region 22 2 3
  • Bud Site Selection Protein 23 Homolog 3 4
  • WBSCR22 3 4
  • MERM1 3 4
  • Williams-Beuren Candidate Region Putative Methyltransferase 3
  • Probable 18S RRNA (Guanine-N(7))-Methyltransferase 3
  • Williams Beuren Syndrome Chromosome Region 22 2
  • Ribosome Biogenesis Methyltransferase WBSCR22 3
  • EC 2.1.1.- 4
  • HASJ4442 3
  • HUSSY-3 3
  • PP3381 3
  • WBMT 3

External Ids for BUD23 Gene

Previous HGNC Symbols for BUD23 Gene

  • WBSCR22

Summaries for BUD23 Gene

Entrez Gene Summary for BUD23 Gene

  • This gene encodes a protein containing a nuclear localization signal and an S-adenosyl-L-methionine binding motif typical of methyltransferases, suggesting that the encoded protein may act on DNA methylation. This gene is deleted in Williams syndrome, a multisystem developmental disorder caused by the deletion of contiguous genes at 7q11.23. Alternatively spliced transcript variants have been found. [provided by RefSeq, Feb 2011]

GeneCards Summary for BUD23 Gene

BUD23 (BUD23, RRNA Methyltransferase And Ribosome Maturation Factor) is a Protein Coding gene. Diseases associated with BUD23 include Williams-Beuren Syndrome. Among its related pathways are Gene Expression and rRNA processing in the nucleus and cytosol.

UniProtKB/Swiss-Prot for BUD23 Gene

  • S-adenosyl-L-methionine-dependent methyltransferase that specifically methylates the N(7) position of a guanine in 18S rRNA (PubMed:25851604). Requires the methyltransferase adapter protein TRM112 for full rRNA methyltransferase activity (PubMed:25851604). Involved in the pre-rRNA processing steps leading to small-subunit rRNA production independently of its RNA-modifying catalytic activity (PubMed:25851604). Important for biogenesis end export of the 40S ribosomal subunit independent on its methyltransferase activity (PubMed:24086612). Locus-specific steroid receptor coactivator. Potentiates transactivation by glucocorticoid (NR3C1), mineralocorticoid (NR3C2), androgen (AR) and progesterone (PGR) receptors (PubMed:24488492). Required for the maintenance of open chromatin at the TSC22D3/GILZ locus to facilitate NR3C1 loading on the response elements (PubMed:24488492). Required for maintenance of dimethylation on histone H3 Lys-79 (H3K79me2), although direct histone methyltransferase activity is not observed in vitro (PubMed:24488492).

Gene Wiki entry for BUD23 Gene

Additional gene information for BUD23 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for BUD23 Gene

Genomics for BUD23 Gene

Products:

  1. Regulatory Element

GeneHancer (GH) Regulatory Elements for BUD23 Gene

Promoters and enhancers for BUD23 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
GH07I073682 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 550.8 +0.3 317 2.5 HDGF PKNOX1 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 POLR2B FOS DNAJC30 BUD23 PIR49908 RFC2 ABHD11-AS1 NSUN5P2 POM121 POM121B VPS37D
GH07I072827 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 24.5 -853.6 -853619 4.4 HDGF PKNOX1 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 POLR2B ZNF766 TYW1B PIR36920 SBDSP1 STAG3L3 POM121B TBL2 POM121 FKBP6 NSUN5P2 BUD23
GH07I073518 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 14.6 -162.0 -162005 4.5 HDGF PKNOX1 CLOCK SMAD1 ARNT ZFP64 ARID4B SIN3A FEZF1 DMAP1 BAZ1B TBL2 POM121B STAG3L3 POM121 FKBP6 MIR590 BUD23 MLXIPL NSUN5P2
GH07I073667 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 14.9 -15.0 -15000 1.3 HDGF ARNT ARID4B SIN3A DMAP1 ZBTB7B E2F8 ZNF207 ZNF143 SP3 VPS37D STAG3L3 POM121B POM121 FKBP6 TBL2 BUD23 GTF2IRD2P1 NSUN5P2 MIR590
GH07I073825 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE dbSUPER 11.3 +146.9 146912 8.4 HDGF PKNOX1 CLOCK FOXA2 ARID4B NEUROD1 SIN3A FEZF1 DMAP1 ZNF2 CLDN4 METTL27 STAG3L3 POM121 POM121B TMEM270 NSUN5P2 DNAJC30 BUD23 NSUN5
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around BUD23 on UCSC Golden Path with GeneCards custom track

Genomic Locations for BUD23 Gene

Genomic Locations for BUD23 Gene
chr7:73,683,025-73,705,161
(GRCh38/hg38)
Size:
22,137 bases
Orientation:
Plus strand
chr7:73,097,355-73,119,491
(GRCh37/hg19)

Genomic View for BUD23 Gene

Genes around BUD23 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
BUD23 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for BUD23 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for BUD23 Gene

Proteins for BUD23 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for BUD23 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O43709-BUD23_HUMAN
    Recommended name:
    Probable 18S rRNA (guanine-N(7))-methyltransferase
    Protein Accession:
    O43709
    Secondary Accessions:
    • A8K501
    • C9K060
    • Q96P12
    • Q9BQ58
    • Q9HBP9

    Protein attributes for BUD23 Gene

    Size:
    281 amino acids
    Molecular mass:
    31880 Da
    Quaternary structure:
    • Heterodimer with TRMT112; this heterodimerization is necessary for the metabolic stability and activity of the catalytic subunit BUD23 (PubMed:25851604). Interacts with GRIP1.
    SequenceCaution:
    • Sequence=AAG17249.1; Type=Frameshift; Positions=194, 203; Evidence={ECO:0000305};

    Alternative splice isoforms for BUD23 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for BUD23 Gene

Post-translational modifications for BUD23 Gene

  • May be ubiquitinated and targeted to degradation in response to proinflammatory cytokine signaling.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for BUD23 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for BUD23 Gene

Domains & Families for BUD23 Gene

Gene Families for BUD23 Gene

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

Protein Domains for BUD23 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for BUD23 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O43709

UniProtKB/Swiss-Prot:

BUD23_HUMAN :
  • Belongs to the class I-like SAM-binding methyltransferase superfamily. BUD23/WBSCR22 family.
Family:
  • Belongs to the class I-like SAM-binding methyltransferase superfamily. BUD23/WBSCR22 family.
genes like me logo Genes that share domains with BUD23: view

Function for BUD23 Gene

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  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

Molecular function for BUD23 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
S-adenosyl-L-methionine + guanine in 18S rRNA = S-adenosyl-L-homocysteine + N(7)-methylguanine in 18S rRNA.
UniProtKB/Swiss-Prot Function:
S-adenosyl-L-methionine-dependent methyltransferase that specifically methylates the N(7) position of a guanine in 18S rRNA (PubMed:25851604). Requires the methyltransferase adapter protein TRM112 for full rRNA methyltransferase activity (PubMed:25851604). Involved in the pre-rRNA processing steps leading to small-subunit rRNA production independently of its RNA-modifying catalytic activity (PubMed:25851604). Important for biogenesis end export of the 40S ribosomal subunit independent on its methyltransferase activity (PubMed:24086612). Locus-specific steroid receptor coactivator. Potentiates transactivation by glucocorticoid (NR3C1), mineralocorticoid (NR3C2), androgen (AR) and progesterone (PGR) receptors (PubMed:24488492). Required for the maintenance of open chromatin at the TSC22D3/GILZ locus to facilitate NR3C1 loading on the response elements (PubMed:24488492). Required for maintenance of dimethylation on histone H3 Lys-79 (H3K79me2), although direct histone methyltransferase activity is not observed in vitro (PubMed:24488492).
UniProtKB/Swiss-Prot Induction:
Up-regulated in CD8+ T lymphocytes by treatment with anti-CD3 and in B lymphocytes by treatment with CD40 ligand and anti-B cell receptor antibody. In macrophages, no induction following LPS treatment. Down-regulated by a combined treatment with TNF and IFNG (at protein level).

Enzyme Numbers (IUBMB) for BUD23 Gene

Phenotypes From GWAS Catalog for BUD23 Gene

Gene Ontology (GO) - Molecular Function for BUD23 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding HDA 22681889
GO:0008168 methyltransferase activity NAS 11124703
GO:0016435 rRNA (guanine) methyltransferase activity IEA,IMP 25851604
GO:0016740 transferase activity IEA --
GO:0046982 protein heterodimerization activity IDA 25851604
genes like me logo Genes that share ontologies with BUD23: view
genes like me logo Genes that share phenotypes with BUD23: view

Animal Model Products

Clone Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for BUD23 Gene

Localization for BUD23 Gene

Subcellular locations from UniProtKB/Swiss-Prot for BUD23 Gene

Nucleus. Nucleus, nucleoplasm. Cytoplasm, perinuclear region. Cytoplasm. Note=Localized diffusely throughout the nucleus and the cytoplasm (PubMed:24488492). Localizes to a polarized perinuclear structure, overlapping partially with the Golgi and lysosomes (PubMed:25851604). Localization is not affected by glucocorticoid treatment (PubMed:24488492). {ECO:0000269 PubMed:24488492, ECO:0000269 PubMed:25851604}.

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 BUD23 gene
Compartment Confidence
nucleus 3
cytosol 2
mitochondrion 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoli (3)
  • Nucleus (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for BUD23 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005575 cellular_component ND --
GO:0005634 nucleus IDA --
GO:0005654 nucleoplasm TAS --
GO:0005730 nucleolus IDA,IBA --
GO:0005737 cytoplasm IEA --
genes like me logo Genes that share ontologies with BUD23: view

Pathways & Interactions for BUD23 Gene

genes like me logo Genes that share pathways with BUD23: view

Gene Ontology (GO) - Biological Process for BUD23 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006364 rRNA processing IEA --
GO:0008150 biological_process ND --
GO:0008152 metabolic process IEA --
genes like me logo Genes that share ontologies with BUD23: view

No data available for SIGNOR curated interactions for BUD23 Gene

Drugs & Compounds for BUD23 Gene

Products:

  1. Drug

(6) Drugs for BUD23 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
3-hydroxyanthranilic acid Experimental Pharma 0
s-adenosylhomocysteine Experimental Pharma 0
5-methyltetrahydrofolic acid Investigational Nutra 0
Serotonin Pharma 3755
Xanthurenic acid Pharma 0

(16) Additional Compounds for BUD23 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
1,6-Dimethoxypyrene
1-Hydroxy-6-methoxypyrene
1-Hydroxyphenanthrene
  • 1-phenanthrenol
  • phenanthren-1-ol
1-Hydroxypyrene
  • 1-Hydroxy pyrene
  • 1-HYDROXYPYRENE
  • 1-Pyrenol
  • Pyren-1-ol
 5315-79-7
1-Methoxyphenanthrene
genes like me logo Genes that share compounds with BUD23: view

Transcripts for BUD23 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for BUD23 Gene

(5) REFSEQ mRNAs :
(434) Selected AceView cDNA sequences:
(18) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for BUD23 Gene

No ASD Table

Relevant External Links for BUD23 Gene

GeneLoc Exon Structure for
BUD23
ECgene alternative splicing isoforms for
BUD23

Expression for BUD23 Gene

Products:

  1. Primer

NURSA nuclear receptor signaling pathways regulating expression of BUD23 Gene:

BUD23

mRNA Expression by UniProt/SwissProt for BUD23 Gene:

O43709-BUD23_HUMAN
Tissue specificity: Widely expressed, with high levels in heart, skeletal muscle and kidney. Detected at high levels in bronchial brushings and in normal lung (at protein level). In fetal lung tissue, expressed in the developing bronchial lumen lining cells (at protein level). Tends to be down-regulated in lungs affected by inflammatory diseases or neoplasia (at protein level). Expressed in immune cells, including B and T lymphocytes and macrophages.

Evidence on tissue expression from TISSUES for BUD23 Gene

  • Nervous system(3.5)
  • Skin(3.4)
  • Lung(2.6)
  • Pancreas(2.5)

No data available for mRNA expression in normal human tissues , mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for BUD23 Gene

Orthologs for BUD23 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for BUD23 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia WBSCR22 33 34
  • 99.44 (n)
mouse
(Mus musculus)
 Mammalia Wbscr22 33 34
  • 82.68 (n)
Bud23 16
cow
(Bos Taurus)
 Mammalia WBSCR22 33 34
  • 82.09 (n)
rat
(Rattus norvegicus)
 Mammalia Wbscr22 33
  • 81.26 (n)
dog
(Canis familiaris)
 Mammalia WBSCR22 33
  • 80.67 (n)
-- 34
  • 69 (a)
 OneToMany
-- 34
  • 67 (a)
 OneToMany
oppossum
(Monodelphis domestica)
 Mammalia WBSCR22 34
  • 72 (a)
 OneToOne
platypus
(Ornithorhynchus anatinus)
 Mammalia WBSCR22 34
  • 67 (a)
 OneToOne
chicken
(Gallus gallus)
 Aves WBSCR22 33 34
  • 70.7 (n)
lizard
(Anolis carolinensis)
 Reptilia WBSCR22 34
  • 69 (a)
 OneToOne
tropical clawed frog
(Silurana tropicalis)
 Amphibia wbscr22 33
  • 66.67 (n)
zebrafish
(Danio rerio)
 Actinopterygii wbscr22 33 34
  • 67.97 (n)
fruit fly
(Drosophila melanogaster)
 Insecta CG10903 33 34
  • 59.25 (n)
African malaria mosquito
(Anopheles gambiae)
 Insecta AgaP_AGAP003728 33
  • 59.12 (n)
worm
(Caenorhabditis elegans)
 Secernentea C27F2.4 33 34
  • 53.57 (n)
A. gosspyii yeast
(Ashbya gossypii)
 Saccharomycetes AGOS_AAR066W 33
  • 54.49 (n)
baker's yeast
(Saccharomyces cerevisiae)
 Saccharomycetes BUD23 33 34 36
  • 53.21 (n)
K. lactis yeast
(Kluyveromyces lactis)
 Saccharomycetes KLLA0F05962g 33
  • 50.94 (n)
thale cress
(Arabidopsis thaliana)
 eudicotyledons AT5G57280 33
  • 55.2 (n)
rice
(Oryza sativa)
 Liliopsida Os02g0804300 33
  • 57.84 (n)
sea squirt
(Ciona savignyi)
 Ascidiacea CSA.6763 34
  • 58 (a)
 OneToOne
bread mold
(Neurospora crassa)
 Ascomycetes NCU00777 33
  • 56.18 (n)
fission yeast
(Schizosaccharomyces pombe)
 Schizosaccharomycetes SPAC26A3.06 33
  • 50.13 (n)
Species where no ortholog for BUD23 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • 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)
  • corn (Zea mays)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)
  • wheat (Triticum aestivum)

Evolution for BUD23 Gene

ENSEMBL:
Gene Tree for BUD23 (if available)
TreeFam:
Gene Tree for BUD23 (if available)

Paralogs for BUD23 Gene

No data available for Paralogs for BUD23 Gene

Variants for BUD23 Gene

Sequence variations from dbSNP and Humsavar for BUD23 Gene

SNP ID Clin Chr 07 pos Variation AA Info Type
rs1000360227 -- 73,695,715(+) T/A intron_variant
rs1000844855 -- 73,690,667(+) G/C intron_variant
rs1001091525 -- 73,696,896(+) C/T intron_variant
rs1001172826 -- 73,692,131(+) C/T intron_variant
rs1001220 -- 73,696,273(+) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for BUD23 Gene

Variant ID Type Subtype PubMed ID
nsv469841 CNV loss 16826518
nsv831028 CNV loss 17160897

Variation tolerance for BUD23 Gene

Residual Variation Intolerance Score: 20.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.84; 17.59% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for BUD23 Gene

Human Gene Mutation Database (HGMD)
BUD23
SNPedia medical, phenotypic, and genealogical associations of SNPs for
BUD23

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for BUD23 Gene

Disorders for BUD23 Gene

MalaCards: The human disease database

(1) MalaCards diseases for BUD23 Gene - From: HGMD, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
williams-beuren syndrome
  • wbs
- elite association - COSMIC cancer census association via MalaCards
Search BUD23 in MalaCards View complete list of genes associated with diseases

UniProtKB/Swiss-Prot

BUD23_HUMAN
  • Note=BUD23 is located in the Williams-Beuren syndrome (WBS) critical region. WBS results from a hemizygous deletion of several genes on chromosome 7q11.23, thought to arise as a consequence of unequal crossing over between highly homologous low-copy repeat sequences flanking the deleted region. Haploinsufficiency of BUD23 may be the cause of certain cardiovascular and musculo-skeletal abnormalities observed in the disease. {ECO:0000305 PubMed:11978965}.

Additional Disease Information for BUD23

ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with BUD23: view

No data available for Genatlas for BUD23 Gene

Publications for BUD23 Gene

  1. Characterization of two novel genes, WBSCR20 and WBSCR22, deleted in Williams-Beuren syndrome. (PMID: 11978965) Doll A … Grzeschik KH (Cytogenetics and cell genetics 2001) 2 3 4 22 58
  2. Identification of additional transcripts in the Williams-Beuren syndrome critical region. (PMID: 12073013) Merla G … Reymond A (Human genetics 2002) 2 3 4 58
  3. The human 18S rRNA base methyltransferases DIMT1L and WBSCR22-TRMT112 but not rRNA modification are required for ribosome biogenesis. (PMID: 25851604) Zorbas C … Lafontaine DL (Molecular biology of the cell 2015) 3 4 58
  4. The methyltransferase WBSCR22/Merm1 enhances glucocorticoid receptor function and is regulated in lung inflammation and cancer. (PMID: 24488492) Jangani M … Ray DW (The Journal of biological chemistry 2014) 3 4 58
  5. The human WBSCR22 protein is involved in the biogenesis of the 40S ribosomal subunits in mammalian cells. (PMID: 24086612) Õunap K … Kurg R (PloS one 2013) 3 4 58

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