SMTL ID : 6s8g.1

Cryo-EM structure of LptB2FGC in complex with AMP-PNP

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-1-1-mer

Ligands

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.1: 17 residues within 4Å: Chain A: Y.13, R.16, V.18, P.37, N.38, G.39, G.41, K.42, T.43, T.44, Q.85, H.195 Chain B: S.137, S.139, G.141, E.142 Chain D: R.301 18 PLIP interactions: 14 interactions with chain A, 3 interactions with chain B, 1 interactions with chain D Hydrogen bonds: A:R.16, A:R.16, A:N.38, A:G.41, A:K.42, A:T.43, A:T.43, A:T.44, A:T.44, A:Q.85, A:Q.85, A:H.195, B:S.137, B:G.141, B:E.142 pi-Stacking: A:Y.13, A:Y.13 Salt bridges: D:R.301 ANP.2: 17 residues within 4Å: Chain A: S.137, S.139, G.141, E.142 Chain B: Y.13, R.16, V.18, P.37, N.38, G.39, G.41, K.42, T.43, T.44, Q.85, H.195 Chain C: R.292 18 PLIP interactions: 14 interactions with chain B, 3 interactions with chain A, 1 interactions with chain C Hydrogen bonds: B:R.16, B:R.16, B:N.38, B:G.41, B:K.42, B:T.43, B:T.43, B:T.44, B:T.44, B:Q.85, B:Q.85, B:H.195, A:S.137, A:G.141, A:E.142 pi-Stacking: B:Y.13, B:Y.13 Salt bridges: C:R.292

1 x LMD: tetradecyl 4-O-alpha-D-glucopyranosyl-beta-D-glucopyranoside(Non-covalent)

LMD.3: 8 residues within 4Å: Chain C: K.13, A.17, I.18 Chain D: M.25, L.74, G.306, V.307, V.310 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:L.74, C:A.17

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tang, X. et al., Cryo-EM structures of lipopolysaccharide transporter LptB2FGC in lipopolysaccharide or AMP-PNP-bound states reveal its transport mechanism. Nat Commun (2019)

Release Date

2019-09-25

Peptides

Lipopolysaccharide ABC transporter, ATP-binding protein LptB: AB
LPS export ABC transporter permease LptF: C
Inner membrane protein yjgQ: 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 ABC transporter, ATP-binding protein LptB

LPS export ABC transporter permease LptF

Inner membrane protein yjgQ

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