PDB Entry (6ypd)
PDB ID: 6ypd Resolution: 1.6 Å Exp. Method: X-RAY DIFFRACTION
PMID: 32545682 DOI: 10.3390/biom10060899
Protein
Protein Name: Beta-lactamase
Uniprot ID/ACC: P00811 (AMPC_ECOLI) Organism: Escherichia coli (strain K12)
Gene Symbol: ampC Gene ID: 948669
Protein Class: HYDROLASE
Ligand
Ligand Name:   (3S)-3-(benzylsulfanyl)-2-hydroxy-3,4-dihydro-2H-1,2-benzoxaborinine-8-carboxylic acid
Canonical SMILES:   OB1Oc2c(C[C@H]1SCc1ccccc1)cccc2C(O)=O
Standard InChI:   InChI=1S/C16H15BO4S/c18-16(19)13-8-4-7-12-9-14(17(20)21-15(12)13)22-10-11-5-2-1-3-6-11/h1-8,14,20H,9-10H2,(H,18,19)/t14-/m1/s1
HET Code:   KL8 PubChem:   -
DrugBank:   - ChEMBL:   -
Molecular Formula:   C16H15BO4S Mol. Weight:   314.0784 logP:   2.6414
HBD:   2 HBA:   4
#Rotatable Bonds:   4 TPSA:   66.76
Covalent Mechanism
Reaction Name Residue Chain ID SASA pKa Warhead Name Warhead Structure
Borylation SER 64 A 14.47 - Boronic Acid
Binding Affinity
-