SMTL ID : 7t60.1 (1 other biounit)

P. aeruginosa LpxA in complex with ligand L13

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-trimer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 4 residues within 4Å: Chain A: F.166, T.182, N.194 Ligands: F9H.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.194 GOL.4: 6 residues within 4Å: Chain B: S.192, F.195, R.212, Y.215, K.216, R.220 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.212, B:R.212, B:R.220, B:R.220

4 x F9H: (3S)-3-(5,5-dimethyl-2-oxo-1,3-oxazolidin-3-yl)-N-(1H-tetrazol-5-yl)-1-[3-(trifluoromethyl)benzoyl]-2,3-dihydro-1H-indole-3-carboxamide(Non-covalent)

F9H.2: 17 residues within 4Å: Chain A: M.114, V.132, N.133, I.148, S.150, G.151, Y.152, F.166, G.168, M.169 Chain B: H.118, A.136, A.138, V.155, H.156, Q.157 Ligands: GOL.1 13 PLIP interactions: 4 interactions with chain B, 9 interactions with chain A Hydrophobic interactions: B:A.138, A:V.132, A:V.132, A:I.148, A:F.166 Hydrogen bonds: B:H.156, B:Q.157, A:S.150, A:S.150, A:M.169 Halogen bonds: B:V.155, A:S.150 pi-Stacking: A:F.166 F9H.5: 19 residues within 4Å: Chain A: D.70, H.118, A.136, A.138, L.154, V.155, H.156, Q.157 Chain C: M.114, V.132, N.133, I.148, S.150, G.151, Y.152, F.166, G.168, M.169 Ligands: F9H.6 11 PLIP interactions: 6 interactions with chain C, 5 interactions with chain A Hydrophobic interactions: C:V.132, C:V.132, C:I.148, C:F.166, A:A.138 Hydrogen bonds: C:S.150, C:M.169, A:H.156, A:H.156, A:Q.157 Halogen bonds: A:V.155 F9H.6: 12 residues within 4Å: Chain A: D.70 Chain C: L.112, M.114, I.130, W.146, I.148, F.166, N.194, E.196, G.197, R.200 Ligands: F9H.5 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:L.112, C:I.130 Hydrogen bonds: C:R.200 pi-Cation interactions: C:R.200 Halogen bonds: C:E.196 F9H.7: 17 residues within 4Å: Chain B: M.114, V.132, N.133, I.148, S.150, G.151, Y.152, F.166, G.168, M.169, F.184 Chain C: H.118, A.136, A.138, V.155, H.156, Q.157 11 PLIP interactions: 6 interactions with chain B, 5 interactions with chain C Hydrophobic interactions: B:V.132, B:V.132, B:I.148 Hydrogen bonds: B:S.150, B:M.169, C:H.156, C:H.156, C:Q.157 pi-Stacking: B:F.166 Halogen bonds: C:A.136, C:V.155

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.3: 5 residues within 4Å: Chain B: A.190, Y.215, Y.219, R.220, R.258 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Y.215, B:Y.219, B:R.258

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sacco, M.D. et al., Structure-Based Ligand Design Targeting Pseudomonas aeruginosa LpxA in Lipid A Biosynthesis. Acs Infect Dis. (2022)

Release Date

2022-07-06

Peptides

Acyl-[acyl-carrier-protein]--UDP-N-acetylglucosamine O-acyltransferase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Acyl-[acyl-carrier-protein]--UDP-N-acetylglucosamine O-acyltransferase

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