PDB Entry (6dq9)
PDB ID: 6dq9 Resolution: 1.75 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:   2-((3-acrylamidophenyl)(2-(piperidin-1-yl)ethoxy)methyl)thieno[3,2-b]pyridine-7-carboxylic acid
Canonical SMILES:   OC(=O)c1ccnc2cc(sc12)[C@H](OCCN1CCCCC1)c1cccc(NC(=O)C=C)c1
Standard InChI:   InChI=1S/C25H27N3O4S/c1-2-22(29)27-18-8-6-7-17(15-18)23(32-14-13-28-11-4-3-5-12-28)21-16-20-24(33-21)19(25(30)31)9-10-26-20/h2,6-10,15-16,23H,1,3-5,11-14H2,(H,27,29)(H,30,31)/t23-/m1/s1
HET Code:   H74 PubChem:   -
DrugBank:   - ChEMBL:   -
Molecular Formula:   C25H27N3O4S Mol. Weight:   465.17224 logP:   4.7109
HBD:   2 HBA:   6
#Rotatable Bonds:   9 TPSA:   91.76
Covalent Mechanism
Reaction Name Residue Chain ID SASA pKa Warhead Name Warhead Structure
Michael Addition CYS 481 A 36.22 13.39 Vinyl Carbonyl
Binding Affinity
-