SMTL ID : 8vp3.1

Cryo-EM structure of the ABC transporter PCAT1 bound with MgADP and Substrate

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-mer

Ligands

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

ADP.1: 11 residues within 4Å: Chain A: Y.518, R.521, V.524, S.544, G.545, G.547, K.548, T.549, T.550, Q.590 Ligands: MG.2 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:R.521, A:G.545, A:G.545, A:S.546, A:G.547, A:K.548, A:T.549, A:T.550, A:T.550, A:Q.590 Salt bridges: A:K.548 pi-Stacking: A:Y.518, A:Y.518 ADP.4: 11 residues within 4Å: Chain C: Y.518, V.524, S.544, G.545, S.546, G.547, K.548, T.549, T.550, Q.590 Ligands: MG.5 12 PLIP interactions: 12 interactions with chain C Hydrogen bonds: C:G.545, C:G.545, C:S.546, C:G.547, C:K.548, C:T.549, C:T.549, C:T.550, C:T.550 Salt bridges: C:K.548 pi-Stacking: C:Y.518, C:Y.518

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: T.549, Q.590, D.670, E.671 Ligands: ADP.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:T.549 MG.5: 5 residues within 4Å: Chain C: T.549, Q.590, D.670, E.671 Ligands: ADP.4 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:T.549

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

01.3: 13 residues within 4Å: Chain A: S.330, I.334, I.338, L.341, I.421, V.422, L.425, G.426, V.429, A.433, Y.436, N.437, N.442 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:I.338, A:L.341, A:I.421, A:V.422, A:L.425, A:A.433 Hydrogen bonds: A:S.330

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

POV.6: 12 residues within 4Å: Chain C: S.330, F.333, I.334, I.337, I.338, L.341, L.425, G.426, Y.436, N.437, K.440, N.442 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:F.333, C:I.334, C:I.337, C:I.338, C:L.341, C:L.425, C:L.425 Hydrogen bonds: C:N.442

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: AC
Bacteriocin-type signal sequence-containing protein: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
B

B
D

D
C

Membrane

We predict this structure to be a membrane protein.
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ABC-type bacteriocin transporter

Bacteriocin-type signal sequence-containing protein

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