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Aliases for SMYD2 Gene

Aliases for SMYD2 Gene

  • SET And MYND Domain Containing 2 2 3
  • SET And MYND Domain-Containing Protein 2 3 4
  • Histone Methyltransferase SMYD2 3 4
  • Lysine N-Methyltransferase 3C 3 4
  • HSKM-B 3 4
  • KMT3C 3 4
  • Zinc Finger, MYND Domain Containing 14 3
  • N-Lysine Methyltransferase SMYD2 3
  • EC 2.1.1.43 4
  • EC 2.1.1.- 4
  • ZMYND14 3

External Ids for SMYD2 Gene

Summaries for SMYD2 Gene

Entrez Gene Summary for SMYD2 Gene

  • SET domain-containing proteins, such as SMYD2, catalyze lysine methylation (Brown et al., 2006 [PubMed 16805913]).[supplied by OMIM, Nov 2008]

GeneCards Summary for SMYD2 Gene

SMYD2 (SET And MYND Domain Containing 2) is a Protein Coding gene. Among its related pathways are Chromatin Regulation / Acetylation and p53 pathway. GO annotations related to this gene include p53 binding and protein-lysine N-methyltransferase activity. An important paralog of this gene is SMYD1.

UniProtKB/Swiss-Prot for SMYD2 Gene

  • Protein-lysine N-methyltransferase that methylates both histones and non-histone proteins, including p53/TP53 and RB1. Specifically methylates histone H3 Lys-4 (H3K4me) and dimethylates histone H3 Lys-36 (H3K36me2). Shows even higher methyltransferase activity on p53/TP53. Monomethylates Lys-370 of p53/TP53, leading to decreased DNA-binding activity and subsequent transcriptional regulation activity of p53/TP53. Monomethylates RB1 at Lys-860.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SMYD2 Gene

Genomics for SMYD2 Gene

Genomic Location for SMYD2 Gene

Start:
214,281,102 bp from pter
End:
214,337,134 bp from pter
Size:
56,033 bases
Orientation:
Plus strand

Genomic View for SMYD2 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SMYD2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SMYD2 Gene

Regulatory Elements for SMYD2 Gene

Proteins for SMYD2 Gene

  • Protein details for SMYD2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NRG4-SMYD2_HUMAN
    Recommended name:
    N-lysine methyltransferase SMYD2
    Protein Accession:
    Q9NRG4
    Secondary Accessions:
    • B2R9P9
    • I6L9H7
    • Q4V765
    • Q5VSH9
    • Q96AI4

    Protein attributes for SMYD2 Gene

    Size:
    433 amino acids
    Molecular mass:
    49688 Da
    Quaternary structure:
    • Interacts with RNA polymerase II and HELZ. Interacts with SIN3A and HDAC1 (By similarity). Interacts (via MYND-type zinc finger) with EPB41L3. Interacts (via SET domain) with p53/TP53. Interacts with RB1 and HSP90AA1.

    Three dimensional structures from OCA and Proteopedia for SMYD2 Gene

    Alternative splice isoforms for SMYD2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SMYD2 Gene

Proteomics data for SMYD2 Gene at MOPED

Post-translational modifications for SMYD2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SMYD2 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SMYD2 Gene

Domains for SMYD2 Gene

Gene Families for SMYD2 Gene

HGNC:
  • ZMYND :Zinc fingers, MYND-type
  • KMT :Chromatin-modifying enzymes / K-methyltransferases

Protein Domains for SMYD2 Gene

UniProtKB/Swiss-Prot:

SMYD2_HUMAN
Domain:
  • Contains 1 SET domain.:
    • Q9NRG4
Family:
  • Belongs to the class V-like SAM-binding methyltransferase superfamily.:
    • Q9NRG4
Similarity:
  • Contains 1 MYND-type zinc finger.:
    • Q9NRG4
genes like me logo Genes that share domains with SMYD2: view

Function for SMYD2 Gene

Molecular function for SMYD2 Gene

UniProtKB/Swiss-Prot CatalyticActivity: S-adenosyl-L-methionine + L-lysine-[histone] = S-adenosyl-L-homocysteine + N(6)-methyl-L-lysine-[histone].
UniProtKB/Swiss-Prot Function: Protein-lysine N-methyltransferase that methylates both histones and non-histone proteins, including p53/TP53 and RB1. Specifically methylates histone H3 Lys-4 (H3K4me) and dimethylates histone H3 Lys-36 (H3K36me2). Shows even higher methyltransferase activity on p53/TP53. Monomethylates Lys-370 of p53/TP53, leading to decreased DNA-binding activity and subsequent transcriptional regulation activity of p53/TP53. Monomethylates RB1 at Lys-860.
UniProtKB/Swiss-Prot Induction: Expression is repressed by CEBPA.

Enzyme Numbers (IUBMB) for SMYD2 Gene

Gene Ontology (GO) - Molecular Function for SMYD2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000993 RNA polymerase II core binding ISS --
GO:0002039 p53 binding IPI 17108971
GO:0005515 protein binding IPI 20870719
GO:0016279 protein-lysine N-methyltransferase activity IDA 17108971
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with SMYD2: view

Phenotypes for SMYD2 Gene

genes like me logo Genes that share phenotypes with SMYD2: view

miRNA for SMYD2 Gene

miRTarBase miRNAs that target SMYD2

No data available for Animal Models , Transcription Factor Targeting and HOMER Transcription for SMYD2 Gene

Localization for SMYD2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SMYD2 Gene

Cytoplasm, cytosol. Nucleus.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SMYD2 Gene COMPARTMENTS Subcellular localization image for SMYD2 gene
Compartment Confidence
cytosol 4
nucleus 4
cytoskeleton 1
extracellular 1
mitochondrion 1

Gene Ontology (GO) - Cellular Components for SMYD2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus ISS --
GO:0005654 nucleoplasm TAS --
GO:0005737 cytoplasm ISS --
GO:0005829 cytosol ISS --
genes like me logo Genes that share ontologies with SMYD2: view

Pathways for SMYD2 Gene

genes like me logo Genes that share pathways with SMYD2: view

Pathways by source for SMYD2 Gene

1 Cell Signaling Technology pathway for SMYD2 Gene
1 BioSystems pathway for SMYD2 Gene

Gene Ontology (GO) - Biological Process for SMYD2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription from RNA polymerase II promoter IMP 17108971
GO:0006325 chromatin organization TAS --
GO:0006351 transcription, DNA-templated IEA --
GO:0008285 negative regulation of cell proliferation ISS --
GO:0010452 histone H3-K36 methylation IEA --
genes like me logo Genes that share ontologies with SMYD2: view

Compounds for SMYD2 Gene

(15) ApexBio Compounds for SMYD2 Gene

Compound Action Cas Number
3-Deazaneplanocin,DZNep Blocks EZH2 activity and trimethylation of lysine 27 on histone H3 in vitro. [102052-95-9]
AZ505 potent and highly selective inhibitor of the oncogenic protein SMYD2. [1035227-43-0]
BIX 01294 BIX-01294 is a small molecule inhibitor of G9a and GLP. [935693-62-2]
Chaetocin Histone methyltransferase SUV39H1 inhibitor [28097-03-2]
Entacapone Entacapone inhibits catechol-O-methyltransferase(COMT) [130929-57-6]
EPZ004777 potent, selective DOT1L inhibitor [1338466-77-5]
EPZ005687 potent inhibitor of EZH2 [1396772-26-1]
EPZ5676 potent inhibitor of DOT1L histone methyltransferase [1380288-87-8]
EPZ-6438 potent and bio-available inhibitor of EZH2 [1403254-99-8 ]
SGC 0946 highly potent and selective DOT1 Lmethyltransferase inhibitor
UNC 0224 Potent inhibitor of G9a histone lysine methyltransferase [1197196-48-7]
UNC 0631 potent G9a inhibitor [1320288-19-4]
UNC 0646 Potent and selective inhibitor of the homologous protein lysine methyltransferases, G9a and GLP [1320288-17-2]
UNC0321 potent and selective G9a inhibitor [1238673-32-9]
UNC0638 Selective inhibitor of G9a and GLP histone lysine methyltransferases (IC50 values are < 15 nM and 19 nM for G9a and GLP respectively, and > 10000 nM for a range of other histone methyltransferases). [1255580-76-7]
genes like me logo Genes that share compounds with SMYD2: view

Transcripts for SMYD2 Gene

Unigene Clusters for SMYD2 Gene

SET and MYND domain containing 2:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SMYD2 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b ^ 8a · 8b ^ 9a · 9b ^ 10 ^ 11a · 11b ^ 12a · 12b
SP1: - - -
SP2: - - - - -
SP3: - -
SP4:
SP5:
SP6:

Relevant External Links for SMYD2 Gene

GeneLoc Exon Structure for
SMYD2
ECgene alternative splicing isoforms for
SMYD2

Expression for SMYD2 Gene

mRNA expression in normal human tissues for SMYD2 Gene

mRNA differential expression in normal tissues according to GTEx for SMYD2 Gene

This gene is overexpressed in Heart - Left Ventricle (10.8).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for SMYD2 Gene

SOURCE GeneReport for Unigene cluster for SMYD2 Gene Hs.66170

genes like me logo Genes that share expressions with SMYD2: view

Orthologs for SMYD2 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for SMYD2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SMYD2 36
  • 96.69 (n)
  • 95.84 (a)
SMYD2 37
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SMYD2 36
  • 92.99 (n)
  • 96.54 (a)
SMYD2 37
  • 97 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SMYD2 36
  • 89.8 (n)
  • 93.18 (a)
SMYD2 37
  • 92 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Smyd2 36
  • 87.3 (n)
  • 93.3 (a)
Smyd2 16
Smyd2 37
  • 93 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SMYD2 37
  • 90 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SMYD2 37
  • 92 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Smyd2 36
  • 87.45 (n)
  • 93.53 (a)
chicken
(Gallus gallus)
Aves SMYD2 36
  • 80.83 (n)
  • 86.14 (a)
SMYD2 37
  • 85 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SMYD2 37
  • 82 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia smyd2-prov 36
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100495522 36
  • 76.89 (n)
  • 82.08 (a)
Str.15286 36
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.13835 36
zebrafish
(Danio rerio)
Actinopterygii smyd2a 36
  • 72.62 (n)
  • 76.1 (a)
smyd2a 37
  • 75 (a)
OneToOne
wufc02f02 36
fruit fly
(Drosophila melanogaster)
Insecta Bzd 37
  • 21 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea set-10 37
  • 18 (a)
ManyToMany
set-14 37
  • 21 (a)
ManyToMany
set-18 37
  • 17 (a)
ManyToMany
set-30 37
  • 16 (a)
ManyToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SET6 39
Species with no ortholog for SMYD2:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • 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)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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 SMYD2 Gene

ENSEMBL:
Gene Tree for SMYD2 (if available)
TreeFam:
Gene Tree for SMYD2 (if available)

Paralogs for SMYD2 Gene

Paralogs for SMYD2 Gene

Selected SIMAP similar genes for SMYD2 Gene using alignment to 5 proteins:

genes like me logo Genes that share paralogs with SMYD2: view

Variants for SMYD2 Gene

Sequence variations from dbSNP and Humsavar for SMYD2 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type MAF
rs4179 -- 214,337,039(-) AAAAC(-/TCTG)TCTGT utr-variant-3-prime, nc-transcript-variant
rs867444 -- 214,328,817(+) TCGGC(C/T)GGGGT intron-variant
rs867445 -- 214,328,887(+) TGCAG(C/G)CAGTC intron-variant
rs867446 -- 214,328,979(+) GGCTG(G/T)GAGCA intron-variant
rs870117 -- 214,332,409(+) GCGGA(C/T)ACTGG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SMYD2 Gene

Variant ID Type Subtype PubMed ID
esv2722595 CNV Deletion 23290073
esv2668267 CNV Deletion 23128226

Relevant External Links for SMYD2 Gene

HapMap Linkage Disequilibrium report
SMYD2

Disorders for SMYD2 Gene

Relevant External Links for SMYD2

Genetic Association Database (GAD)
SMYD2
Human Genome Epidemiology (HuGE) Navigator
SMYD2
genes like me logo Genes that share disorders with SMYD2: view

No data available for UniProtKB/Swiss-Prot for SMYD2 Gene

Publications for SMYD2 Gene

  1. Structure of human lysine methyltransferase Smyd2 reveals insights into the substrate divergence in Smyd proteins. (PMID: 21724641) Xu S. … Ding J. (J Mol Cell Biol 2011) 3 4
  2. Structural basis of substrate methylation and inhibition of SMYD2. (PMID: 21782458) Ferguson A.D. … Keen N. (Structure 2011) 3 4
  3. Structure of human SMYD2 protein reveals the basis of p53 tumor suppressor methylation. (PMID: 21880715) Wang L. … Zhao K. (J. Biol. Chem. 2011) 3 4
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  5. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory S.G. … Bentley D.R. (Nature 2006) 3 4

Products for SMYD2 Gene

  • Addgene plasmids for SMYD2

Sources for SMYD2 Gene

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