SMTL ID : 8tso.1

KDL bound, nucleotide-free MsbA in open, outward-facing conformation

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

4 x CXE: PENTAETHYLENE GLYCOL MONODECYL ETHER(Non-covalent)

CXE.1: 11 residues within 4Å: Chain A: F.14, R.15, W.18, P.19, G.32, L.35, I.36, A.39, I.145, V.148, R.149 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.35, A:I.36, A:A.39, A:R.149 CXE.2: 6 residues within 4Å: Chain A: F.158, V.179, S.180, I.183, R.184, A.260 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.158, A:V.179, A:I.183 CXE.5: 10 residues within 4Å: Chain B: F.14, R.15, W.18, P.19, G.32, L.35, I.36, A.39, V.148, R.149 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:L.35, B:I.36, B:A.39, B:R.149 CXE.6: 6 residues within 4Å: Chain B: F.158, V.179, S.180, I.183, R.184, A.260 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:F.158, B:V.179, B:I.183

2 x KDL: (2~{R},4~{R},5~{R},6~{R})-6-[(1~{R})-1,2-bis(oxidanyl)ethyl]-2-[(2~{R},4~{R},5~{R},6~{R})-6-[(1~{R})-1,2-bis(oxidanyl)ethyl]-2-carboxy-2-[[(2~{R},3~{S},4~{R},5~{R},6~{R})-5-[[(3~{R})-3-dodecanoyloxytetradecanoyl]amino]-6-[[(2~{R},3~{S},4~{R},5~{R},6~{R})-3-oxidanyl-5-[[(3~{R})-3-oxidanyltetradecanoyl]amino]-4-[(3~{R})-3-oxidanyltetradecanoyl]oxy-6-phosphonooxy-oxan-2-yl]methoxy]-3-phosphonooxy-4-[(3~{R})-3-tetradecanoyloxytetradecanoyl]oxy-oxan-2-yl]methoxy]-5-oxidanyl-oxan-4-yl]oxy-4,5-bis(oxidanyl)oxane-2-carboxylic acid(Non-covalent)

KDL.3: 17 residues within 4Å: Chain A: A.182, R.189, N.236, R.237, R.239, L.240, K.244, I.251, P.254, L.258 Chain B: G.27, V.30, I.77, Y.84, Y.88, C.89, W.92 20 PLIP interactions: 14 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:I.251, A:I.251, A:I.251, A:L.258, B:Y.84, B:Y.84, B:Y.84, B:Y.88, B:Y.88, B:W.92 Hydrogen bonds: A:R.189, A:R.189, A:N.236 Salt bridges: A:R.189, A:R.189, A:R.237, A:R.239, A:K.244, A:K.244, A:K.244 KDL.4: 17 residues within 4Å: Chain A: G.27, V.30, I.77, Y.84, Y.88, C.89, W.92 Chain B: A.182, R.189, N.236, R.237, R.239, L.240, K.244, I.251, P.254, L.258 21 PLIP interactions: 7 interactions with chain A, 14 interactions with chain B Hydrophobic interactions: A:I.77, A:Y.84, A:Y.84, A:Y.84, A:Y.88, A:Y.88, A:W.92, B:I.251, B:I.251, B:P.254, B:L.258 Hydrogen bonds: B:R.189, B:R.189, B:N.236 Salt bridges: B:R.189, B:R.189, B:R.237, B:R.239, B:K.244, B:K.244, B:K.244

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, T. et al., Native mass spectrometry captures snapshots of the MsbA transport cycle. To Be Published

Release Date

2024-06-19

Peptides

ATP-binding transport protein MsbA: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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ATP-binding transport protein MsbA

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