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Tchem
SMYD2
N-lysine methyltransferase SMYD2

Protein Summary
Description
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'. SET domain-containing proteins, such as SMYD2, catalyze lysine methylation (Brown et al., 2006 [PubMed 16805913]).[supplied by OMIM, Nov 2008]
Uniprot Accession IDs
Gene Name
Ensembl ID
  • ENST00000366957
  • ENSP00000355924
  • ENSG00000143499

Symbol
  • KMT3C
  • KMT3C
  • HSKM-B
  • ZMYND14
Illumination Graph
Knowledge Table
Most Knowledge About
Knowledge Value (0 to 1 scale)
molecular function
0.88
disease perturbation
0.87
histone modification site profile
0.87
transcription factor perturbation
0.84
kinase perturbation
0.81


Related Tools
Target Illumination GWAS Analytics (TIGA)
TIGA scores and ranks GWAS discovered associations according to the quantity and quality of the evidence supporting the association.
GENEVA
GENEVA (GENe Expression Variance Analysis) allows you to identify RNA-sequencing datasets from the Gene Expression Omnibus (GEO) that contain conditions modulating a gene or a gene signature.
GlyGen
GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.
ARCHS4
ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.
IDG Development Level Summary
Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 64.9   (req: < 5)
Gene RIFs: 36   (req: <= 3)
Antibodies: 305   (req: <= 50)
Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 64.9   (req: >= 5)
Gene RIFs: 36   (req: > 3)
Antibodies: 305   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 14
Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligands: 17
Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0
Active Ligands (17)
1 – 10 of 17
CHEMBL418052
chemical structure image
CHEMBL3819277
chemical structure image
CHEMBL2169920
chemical structure image
CHEMBL3414623
chemical structure image
CHEMBL3818176
chemical structure image
CHEMBL3590519
chemical structure image
CHEMBL3818526
chemical structure image
CHEMBL3818092
chemical structure image
CHEMBL3818083
chemical structure image
CHEMBL3819554
chemical structure image
GWAS Traits (2)
GWAS Trait
EFO ID
Study Count
SNP Count
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
smoking status measurement
1
1
1
74.9
smoking initiation
1
1
1
50.7
GWAS Trait
EFO ID
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
smoking status measurement
1
74.9
smoking initiation
1
50.7
Orthologs (13)
1 – 5 of 13
Species
Name
Source ID
Gene ID
OMA
EggNOG
Inparanoid
Chimp
SET and MYND domain containing 2
VGNC:1558
457729
Macaque
SET and MYND domain containing 2
709375
Mouse
MGI:1915889
226830
Rat
RGD:727785
289372
Dog
SET and MYND domain containing 2
VGNC:53836
480026
Species
Name
OMA
EggNOG
Inparanoid
Chimp
SET and MYND domain containing 2
Macaque
SET and MYND domain containing 2
Mouse
Rat
Dog
SET and MYND domain containing 2
Protein Structure (20 Structures, 1 AlphaFold Model)
RepresentationColor Scheme

Click on a row in the table to change the structure displayed.
More information can be found at RCSB PDB

AF-Q9NRG4-F1-model_v1

AlphaFold Structures Developed by DeepMind and EMBL-EBI

1 – 5 of 20
PDB Structure Id
Ligand
Method
Resolution (Å)
Residues
Fraction of Total Protein
Pub Year
Title
PDB Structure Id
Fraction of Total Protein
Resolution
Pub Year
Pathways (11)
Chromatin modifying enzymes (R-HSA-3247509)

Click on a row in the table to change the structure displayed.

Items per page:
1 – 5 of 9
Data Source
Name
Explore in Pharos
Explore in Source
Reactome
Chromatin modifying enzymes
Reactome
Chromatin organization
Reactome
Gene expression (Transcription)
Reactome
Generic Transcription Pathway
Reactome
PKMTs methylate histone lysines
Name
Explore in Pharos
Explore in Source
Chromatin modifying enzymes
Chromatin organization
Gene expression (Transcription)
Generic Transcription Pathway
PKMTs methylate histone lysines
Gene Ontology Terms (18)
Items per page:
10
1 – 7 of 7
GO Term
Evidence
Assigned by
Inferred from Direct Assay (IDA)
UniProtKB
Inferred from Physical Interaction (IPI)
UniProtKB
Inferred from Sequence or structural Similarity (ISS)
UniProtKB
Inferred from Sequence or structural Similarity (ISS)
UniProtKB
Traceable Author Statement (TAS)
Reactome
Traceable Author Statement (TAS)
Reactome
Inferred from Electronic Annotation (IEA)
UniProtKB-KW
Protein-Protein Interactions (101)
1 – 10 of 101
CPSF4
Tbio
Novelty: 0.00206207
p_int: 0.999999973
p_ni: 2.6e-8
p_wrong: 1e-9
Score: 0.217
Data Source: BioPlex,STRINGDB
ZFC3H1
Tbio
Novelty: 0.17313739
p_int: 0.999999501
p_ni: 4.99e-7
Score: 0.227
Data Source: BioPlex,STRINGDB
TXNDC9
Tbio
Novelty: 0.00309772
p_int: 0.999998515
p_ni: 0.000001485
Score: 0.199
Data Source: BioPlex,STRINGDB
CCSER1
Tbio
Novelty: 0.20244518
p_int: 0.999996286
p_ni: 9.64e-7
p_wrong: 0.000002751
Score: 0.347
Data Source: BioPlex,STRINGDB
ZNF408
Tbio
Family: TF
Novelty: 0.10649477
p_int: 0.999990082
p_ni: 0.000009918
Score: 0.222
Data Source: BioPlex,STRINGDB
GOLGA4
Tbio
Novelty: 0.01363253
p_int: 0.999479602
p_ni: 0.000520397
Score: 0.455
Data Source: BioPlex,STRINGDB
NPPA
Tchem
Novelty: 0.00046693
p_int: 0.999315304
p_ni: 0.000658397
p_wrong: 0.000026299
Score: 0.16
Data Source: BioPlex,STRINGDB
CELA1
Tchem
Family: Enzyme
Novelty: 0.00290708
p_int: 0.99642101
p_ni: 0.003468042
p_wrong: 0.000110948
Score: 0.187
Data Source: BioPlex,STRINGDB
FOXP3
Tbio
Family: TF
Novelty: 0.00017205
p_int: 0.983967596
p_ni: 0.006727601
p_wrong: 0.009304803
Score: 0.275
Data Source: BioPlex,STRINGDB
JPH4
Tbio
Novelty: 0.07699598
p_int: 0.814798732
p_ni: 0.000974753
p_wrong: 0.184226516
Data Source: BioPlex
Publication Statistics
PubMed Score  64.90

PubMed score by year
PubTator Score  30.18

PubTator score by year
Amino Acid Sequence
Residue Counts
Protein Sequence
ProtVista Viewer