SMTL ID : 8vp5.1

Cryo-EM structure of the ABC transporter PCAT1 bound with ADP 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: 12 residues within 4Å: Chain B: N.282, Y.518, R.521, V.524, E.543, S.544, G.545, S.546, G.547, K.548, T.549, T.550 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:N.282, B:G.545, B:G.545, B:G.547, B:K.548, B:T.549, B:T.549, B:T.549, B:T.550, B:T.550 Salt bridges: B:K.548 pi-Stacking: B:Y.518, B:Y.518 ADP.5: 11 residues within 4Å: Chain C: N.282, Y.518, R.521, V.524, E.543, G.545, S.546, G.547, K.548, T.549, T.550 11 PLIP interactions: 11 interactions with chain C Hydrogen bonds: C:N.282, C:G.545, C:G.545, C:S.546, C:G.547, C:K.548, C:T.549, C:T.550 Salt bridges: C:K.548 pi-Stacking: C:Y.518, C:Y.518

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

01.2: 9 residues within 4Å: Chain B: F.332, F.336, I.339, G.343, I.344, T.347, V.348, I.466 Ligands: 01.3 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:F.332, B:F.332, B:F.336, B:I.344, B:I.466 01.3: 11 residues within 4Å: Chain B: A.317, V.318, G.321, Y.325, F.332, T.347, V.462, L.465, I.466, Q.469 Ligands: 01.2 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:A.317, B:V.318, B:Y.325, B:Y.325, B:L.465 01.4: 9 residues within 4Å: Chain B: L.241, L.242, F.245 Chain C: F.349, P.352, L.411, N.414, S.417, I.421 8 PLIP interactions: 4 interactions with chain B, 4 interactions with chain C Hydrophobic interactions: B:L.241, B:L.241, B:L.242, B:F.245, C:N.414, C:I.421 Hydrogen bonds: C:N.414 pi-Cation interactions: C:F.349 01.6: 9 residues within 4Å: Chain C: S.330, I.337, I.421, V.422, V.429, A.433, Y.436, K.440, N.442 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:I.337, C:V.429, C:Y.436 Hydrogen bonds: C:S.330

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

POV.7: 14 residues within 4Å: Chain C: V.318, F.336, L.340, G.343, I.344, T.347, V.348, K.351, P.352, F.458, V.462, L.465, I.466, Q.469 13 PLIP interactions: 13 interactions with chain C Hydrophobic interactions: C:V.318, C:F.336, C:F.336, C:L.340, C:I.344, C:F.458, C:V.462, C:L.465, C:L.465, C:I.466, C:I.466 Hydrogen bonds: C:T.347, C:K.351

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

Bacteriocin-type signal sequence-containing protein: AD
ABC-type bacteriocin transporter: BC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

D
D

B
A

C
B

Membrane

We predict this structure to be a membrane protein.
Show / Hide

Bacteriocin-type signal sequence-containing protein

ABC-type bacteriocin transporter

Related Entries With Identical Sequence