SMTL ID : 8ufg.1

Acinetobacter baylyi LptB2FG bound to Acinetobacter baylyi lipopolysaccharide

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-1-1-mer

Ligands

1 x LMT: DODECYL-BETA-D-MALTOSIDE(Non-covalent)

LMT.1: 8 residues within 4Å: Chain C: F.307, A.310, S.311, V.314 Chain D: F.33, L.36, G.37 Ligands: WJR.2 5 PLIP interactions: 3 interactions with chain D, 2 interactions with chain C Hydrophobic interactions: D:F.33, D:F.33, C:A.310, C:V.314 Hydrogen bonds: D:N.41

1 x WJR: (2~{R},4~{R},5~{R},6~{R})-2-[(2~{R},4~{R},5~{R},6~{R})-5-[(2~{S},4~{R},5~{R},6~{R})-4-[(2~{R},3~{R},4~{R},5~{S},6~{S})-3-acetamido-6-carboxy-4,5-bis(oxidanyl)oxan-2-yl]oxy-6-[(1~{R})-1,2-bis(oxidanyl)ethyl]-2-carboxy-5-oxidanyl-oxan-2-yl]oxy-6-[(1~{R})-1,2-bis(oxidanyl)ethyl]-2-carboxy-2-[[(2~{R},3~{S},4~{R},5~{R},6~{R})-4-[(3~{S})-3-dodecanoyloxydodecanoyl]oxy-6-[[(2~{R},3~{S},4~{R},5~{R},6~{R})-5-[[(3~{R})-3-heptanoyloxyundecanoyl]amino]-3-oxidanyl-4-[(3~{R})-3-oxidanyloctanoyl]oxy-6-phosphonooxy-oxan-2-yl]methoxy]-5-[[(3~{S})-3-[(3~{R})-3-oxidanyldecanoyl]oxydecanoyl]amino]-3-phosphonooxy-oxan-2-yl]methoxy]oxan-4-yl]oxy-6-[(1~{R})-1,2-bis(oxidanyl)ethyl]-4,5-bis(oxidanyl)oxane-2-carboxylic acid(Non-covalent)

WJR.2: 32 residues within 4Å: Chain C: I.25, M.26, G.29, R.30, K.33, V.37, R.55, E.58, F.59, T.61, L.62, Q.113, M.117, W.271, T.278, A.310, I.313, V.314, L.316, I.317 Chain D: Q.30, F.33, T.34, N.41, E.65, I.66, I.69, K.135, L.313, Y.316, Y.317 Ligands: LMT.1 32 PLIP interactions: 21 interactions with chain C, 11 interactions with chain D Hydrophobic interactions: C:I.25, C:E.58, C:F.59, C:L.62, C:T.278, C:A.310, C:I.313, C:V.314, C:L.316, C:I.317, C:I.317, D:Q.30, D:F.33, D:F.33, D:I.66, D:I.69, D:Y.316 Hydrogen bonds: C:R.30, C:R.30, C:K.33, D:Q.30, D:N.41, D:K.135, D:Y.316 Salt bridges: C:R.30, C:R.30, C:K.33, C:K.33, C:R.42, C:R.55, C:R.55, D:K.135

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pahil, K.S. et al., A new antibiotic traps lipopolysaccharide in its intermembrane transporter. Nature (2024)

Release Date

2024-01-03

Peptides

Lipopolysaccharide export system ATP-binding protein LptB: AB
Lipopolysaccharide export system permease protein LptF: C
LPS export ABC transporter permease LptG: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
F

D
G

Membrane

We predict this structure to be a membrane protein.
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Lipopolysaccharide export system ATP-binding protein LptB

Lipopolysaccharide export system permease protein LptF

LPS export ABC transporter permease LptG

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