SMTL ID : 8voz.1

Cryo-EM structure of the ABC transporter PCAT1 cysteine-free core bound with MgADP and substrate

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 16 residues within 4Å: Chain A: N.133, Y.369, R.372, V.375, S.395, G.396, S.397, G.398, K.399, T.400, T.401, Q.441 Chain B: A.495, N.496, E.499 Ligands: MG.2 12 PLIP interactions: 11 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:N.133, A:G.396, A:G.396, A:S.397, A:G.398, A:K.399, A:T.400, A:T.401, B:E.499 Salt bridges: A:K.399 pi-Stacking: A:Y.369, A:Y.369 ADP.4: 15 residues within 4Å: Chain A: A.495, N.496 Chain B: N.133, Y.369, R.372, V.375, E.394, G.396, S.397, G.398, K.399, T.400, T.401, Q.441 Ligands: MG.5 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:E.394, B:G.396, B:G.396, B:S.397, B:G.398, B:K.399, B:T.400, B:T.401, B:Q.441 Salt bridges: B:K.399 pi-Stacking: B:Y.369, B:Y.369

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: T.400, Q.441, D.521 Ligands: ADP.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.400 MG.5: 4 residues within 4Å: Chain B: T.400, Q.441, D.521 Ligands: ADP.4 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:T.400

1 x 01: 3-[oxidanyl-[2-(trimethyl-$l^{4}-azanyl)ethoxy]phosphoryl]oxypropyl hexadecanoate

01.3: 7 residues within 4Å: Chain A: S.181, I.185, L.192, L.276, Y.287, N.288, N.293 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.185, A:L.192, A:L.276, A:L.276 Hydrogen bonds: A:N.293

1 x POV: (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate(Non-covalent)

POV.6: 11 residues within 4Å: Chain B: I.185, I.188, L.192, I.272, V.273, L.276, V.280, W.283, A.284, Y.287, N.288 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:I.185, B:I.188, B:L.192, B:I.272, B:V.273, B:L.276, B:V.280, B:V.280, B:W.283, B:W.283 Hydrogen bonds: B:N.288

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, R. et al., Conformational cycle of a protease-containing ABC transporter in lipid nanodiscs reveals the mechanism of cargo-protein coupling. Nat Commun (2024)

Release Date

2024-10-30

Peptides

ABC-type bacteriocin transporter: 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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ABC-type bacteriocin transporter

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