PDB Entry (5yjo)
PDB ID: 5yjo Resolution: 2.13 Å Exp. Method: X-RAY DIFFRACTION
PMID: 31223458 DOI: 10.1021/acsmedchemlett.9b00170
Protein
Protein Name: Histone-lysine N-methyltransferase SMYD3
Uniprot ID/ACC: Q9H7B4 (SMYD3_HUMAN) Organism: Homo sapiens (Human)
Gene Symbol: SMYD3 Gene ID: 64754
Protein Class: TRANSFERASE
Ligand
Ligand Name:   propyl (3S)-4-[(6R)-6-(aminomethyl)-9-chloro-5,6,7,8-tetrahydroacridine-3-carbonyl]-3-methylpiperazine-1-carboxylate
Canonical SMILES:   CCCOC(=O)N1CCN([C@@H](C)C1)C(=O)c1ccc2c(Cl)c3CC[C@@H](CN)Cc3nc2c1
Standard InChI:   InChI=1S/C24H31ClN4O3/c1-3-10-32-24(31)28-8-9-29(15(2)14-28)23(30)17-5-7-19-21(12-17)27-20-11-16(13-26)4-6-18(20)22(19)25/h5,7,12,15-16H,3-4,6,8-11,13-14,26H2,1-2H3/t15-,16+/m0/s1
HET Code:   8W0 PubChem:   -
DrugBank:   - ChEMBL:   -
Molecular Formula:   C24H31ClN4O3 Mol. Weight:   458.20847 logP:   3.6447
HBD:   1 HBA:   5
#Rotatable Bonds:   4 TPSA:   88.76
Covalent Mechanism
Reaction Name Residue Chain ID SASA pKa Warhead Name Warhead Structure
Nucleophilic Aromatic Substitution CYS 186 A 31.88 14.81 Aryl Halide
Binding Affinity
-