PDB Entry (2y2k)
PDB ID: 2y2k Resolution: 2.09 Å Exp. Method: X-RAY DIFFRACTION
PMID: 21732689 DOI: 10.1021/CB2001846
Protein
Protein Name: DD-transpeptidase
Uniprot ID/ACC: Q7CRA4 (Q7CRA4_STRR6) Organism: Streptococcus pneumoniae (strain ATCC BAA-255 / R6)
Gene Symbol: pbp1b Gene ID: -
Protein Class: TRANSFERASE
Ligand
Ligand Name:   {[(2,6-difluorophenyl)formamido]methyl}boronic acid
Canonical SMILES:   OB(O)CNC(=O)c1c(F)cccc1F
Standard InChI:   InChI=1S/C8H8BF2NO3/c10-5-2-1-3-6(11)7(5)8(13)12-4-9(14)15/h1-3,14-15H,4H2,(H,12,13)
HET Code:   ZA5 PubChem:   70696416
DrugBank:   - ChEMBL:   CHEMBL2035285
Molecular Formula:   C8H8BF2NO3 Mol. Weight:   215.05653 logP:   -0.2934
HBD:   3 HBA:   3
#Rotatable Bonds:   3 TPSA:   69.56
Covalent Mechanism
Reaction Name Residue Chain ID SASA pKa Warhead Name Warhead Structure
Borylation SER 460 A 10.69 - Boronic Acid
Binding Affinity
Database Name Value
PDBBind IC50 : 6900 nM