PDB Entry (6dqb)
PDB ID: 6dqb Resolution: 1.79 Å Exp. Method: X-RAY DIFFRACTION
PMID: 30392349 DOI: 10.1021/acs.jmedchem.8b01219
Protein
Protein Name: Lysine-specific demethylase 5A
Uniprot ID/ACC: P29375 (KDM5A_HUMAN) Organism: Homo sapiens (Human)
Gene Symbol: KDM5A Gene ID: 5927
Protein Class: OXIDOREDUCTASE
Ligand
Ligand Name:   (S)-2-((3-(4-(dimethylamino)but-2-enamido)phenyl)(2-(piperidin-1-yl)ethoxy)methyl)thieno[3,2-b]pyridine-7-carboxylic acid
Canonical SMILES:   CN(C)C\C=C\C(=O)Nc1cccc(c1)[C@H](OCCN1CCCCC1)c1cc2nccc(C(O)=O)c2s1
Standard InChI:   InChI=1S/C28H34N4O4S/c1-31(2)13-7-10-25(33)30-21-9-6-8-20(18-21)26(36-17-16-32-14-4-3-5-15-32)24-19-23-27(37-24)22(28(34)35)11-12-29-23/h6-12,18-19,26H,3-5,13-17H2,1-2H3,(H,30,33)(H,34,35)/b10-7+/t26-/m0/s1
HET Code:   HZM PubChem:   -
DrugBank:   - ChEMBL:   -
Molecular Formula:   C28H34N4O4S Mol. Weight:   522.2301 logP:   4.6427
HBD:   2 HBA:   7
#Rotatable Bonds:   11 TPSA:   95.0
Covalent Mechanism
Reaction Name Residue Chain ID SASA pKa Warhead Name Warhead Structure
Michael Addition CYS 481 A 31.09 12.23 Vinyl Carbonyl
Binding Affinity
-