PDB Entry (6dte)
PDB ID: 6dte Resolution: 1.93 Å Exp. Method: X-RAY DIFFRACTION
PMID: 30178799 DOI: 10.1039/c8cc05281f
Protein
Protein Name: Beta-hexosaminidase
Uniprot ID/ACC: A0A125HFC0 (A0A125HFC0_9BURK) Organism: Burkholderia cenocepacia
Gene Symbol: nagZ_2 Gene ID: -
Protein Class: HYDROLASE
Ligand
Ligand Name:   N-[(1S,2R,3R,4R,5R,6R)-3,4-dihydroxy-5-(hydroxymethyl)-7-oxabicyclo[4.1.0]heptan-2-yl]-2,2,2-trifluoroacetamide
Canonical SMILES:   OC[C@@H]([C@@H](O1)[C@@H]12)[C@@H](O)[C@H](O)[C@H]2NC(=O)C(F)(F)F
Standard InChI:   InChI=1S/C9H12F3NO5/c10-9(11,12)8(17)13-3-5(16)4(15)2(1-14)6-7(3)18-6/h2-7,14-16H,1H2,(H,13,17)/t2-,3-,4-,5-,6-,7+/m1/s1
HET Code:   H9J PubChem:   -
DrugBank:   - ChEMBL:   -
Molecular Formula:   C9H12F3NO5 Mol. Weight:   271.06674 logP:   -1.8552
HBD:   4 HBA:   5
#Rotatable Bonds:   2 TPSA:   102.32
Covalent Mechanism
Reaction Name Residue Chain ID SASA pKa Warhead Name Warhead Structure
Epoxide Opening ASP 253 A 23.56 9.25 Epoxide
Binding Affinity
-