PDB Entry (2y2n) |
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PDB ID: 2y2n | Resolution: 2.07 Å | Exp. Method: X-RAY DIFFRACTION |
PMID: 21732689 | DOI: 10.1021/CB2001846 | |
Protein |
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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 |
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Ligand Name: [(1S)-1-[(2-benzylphenyl)formamido]ethyl]boronic acid | ||
Canonical SMILES: OB(O)[C@@H](C)NC(=O)c1ccccc1Cc2ccccc2 | ||
Standard InChI: InChI=1S/C16H18BNO3/c1-12(17(20)21)18-16(19)15-10-6-5-9-14(15)11-13-7-3-2-4-8-13/h2-10,12,20-21H,11H2,1H3,(H,18,19)/t12-/m1/s1 | ||
HET Code: E07 | PubChem: 53324014 | |
DrugBank: - | ChEMBL: CHEMBL1672820 | |
Molecular Formula: C16H18BNO3 | Mol. Weight: 283.13797 | logP: 1.4077 |
HBD: 3 | HBA: 3 | |
#Rotatable Bonds: 5 | TPSA: 69.56 |
Covalent Mechanism |
Reaction Name | Residue | Chain ID | SASA | pKa | Warhead Name | Warhead Structure |
Borylation | SER 460 | A | 11.65 | - | Boronic Acid |
Binding Affinity |
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Database Name | Value |
PDBBind | IC50 : 27000 nM |