PDB Entry (4qtf)
PDB ID: 4qtf Resolution: 2.0 Å Exp. Method: X-RAY DIFFRACTION
PMID: - DOI: -
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:   (5S,6R)-6-acetyl-3-({[(aminomethyl)amino]methyl}sulfanyl)-7-oxo-1-azabicyclo[3.2.0]hept-2-ene-2-carboxylic acid
Canonical SMILES:   CC(=O)[C@H]1[C@@H]2CC(SCNCN)=C(N2C1=O)C(O)=O
Standard InChI:   InChI=1S/C11H15N3O4S/c1-5(15)8-6-2-7(19-4-13-3-12)9(11(17)18)14(6)10(8)16/h6,8,13H,2-4,12H2,1H3,(H,17,18)/t6-,8-/m0/s1
HET Code:   3V5 PubChem:   -
DrugBank:   - ChEMBL:   -
Molecular Formula:   C11H15N3O4S Mol. Weight:   285.07834 logP:   -0.7012
HBD:   3 HBA:   6
#Rotatable Bonds:   6 TPSA:   112.73
Covalent Mechanism
Reaction Name Residue Chain ID SASA pKa Warhead Name Warhead Structure
Beta-Lactam Addition CYS 354 A 19.25 13.36 Beta-Lactam
Binding Affinity
-