PDB Entry (5k69) |
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PDB ID: 5k69 | Resolution: 2.0 Å | Exp. Method: X-RAY DIFFRACTION |
PMID: 27820797 | DOI: 10.1038/nchembio.2237 | |
Protein |
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Protein Name: L,D-transpeptidase 2 | |
Uniprot ID/ACC: I6Y9J2 (LDT2_MYCTU) | Organism: Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) |
Gene Symbol: ldtB | Gene ID: 888160 |
Protein Class: TRANSFERASE |
Ligand |
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Ligand Name: Carbapenem T224 | ||
Canonical SMILES: C[C@@H](O)[C@@H]1[C@H]2[C@@H](C)C(Sc3c[nH]c4ccccc34)=C(N2C1=O)C(O)=O | ||
Standard InChI: InChI=1S/C18H18N2O4S/c1-8-14-13(9(2)21)17(22)20(14)15(18(23)24)16(8)25-12-7-19-11-6-4-3-5-10(11)12/h3-9,13-14,19,21H,1-2H3,(H,23,24)/t8-,9-,13-,14-/m1/s1 | ||
HET Code: 6QR | PubChem: 122174212 | |
DrugBank: - | ChEMBL: - | |
Molecular Formula: C18H18N2O4S | Mol. Weight: 358.09872 | logP: 2.4137 |
HBD: 3 | HBA: 4 | |
#Rotatable Bonds: 4 | TPSA: 93.63 |
Covalent Mechanism |
Reaction Name | Residue | Chain ID | SASA | pKa | Warhead Name | Warhead Structure |
Beta-Lactam Addition | CYS 354 | B | 14.96 | 14.26 | Beta-Lactam |
Binding Affinity |
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