SMTL ID : 8crl.1 (1 other biounit)

Crystal structure of LplA1 in complex with the inhibitor C3 (Listeria monocytogenes)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

monomer

Ligands

1 x VK9: ~{N}-[3-[2-(6-aminopurin-9-yl)ethanoylamino]propyl]-5-[(3~{R})-1,2-dithiolan-3-yl]pentanamide(Non-covalent)

VK9.1: 20 residues within 4Å: Chain A: Y.40, I.47, R.73, G.78, A.79, V.80, Y.81, H.82, N.86, K.135, G.138, N.139, A.140, H.151, G.152, T.153, M.155, L.158, V.163, L.167 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:V.80, A:A.140 Hydrogen bonds: A:G.78, A:G.78, A:A.79, A:Y.81, A:Y.81, A:K.135, A:T.153

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 1 residues within 4Å: Chain A: D.9 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.9 CA.3: 2 residues within 4Å: Chain A: D.332, Y.335 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:Y.335, A:Y.335

2 x NA: SODIUM ION(Non-functional Binders)

NA.4: 2 residues within 4Å: Chain A: E.196, E.201 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.201 NA.5: 3 residues within 4Å: Chain A: D.157, N.188, D.191 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.188, A:D.191

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.6: 2 residues within 4Å: Chain A: Y.209, V.213 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.209

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dienemann, J.N. et al., A Chemical Proteomic Strategy Reveals Inhibitors of Lipoate Salvage in Bacteria and Parasites. Angew.Chem.Int.Ed.Engl. (2023)

Release Date

2023-06-07

Peptides

lipoate--protein ligase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

lipoate--protein ligase

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