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 |