PDB Entry (5k69)
PDB ID: 5k69 Resolution: 2.0 Å Exp. Method: X-RAY DIFFRACTION
PMID: 27820797 DOI: 10.1038/nchembio.2237
Protein
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
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
-