SMTL ID : 7wgt.1

X-ray structure of thermostabilized Drosophila dopamine transporter with GABA transporter1-like substitutions in the binding site, in complex with NO711.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.75 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x 9BC: 1-(2-{[(diphenylmethylidene)amino]oxy}ethyl)-1,2,5,6-tetrahydropyridine-3-carboxylic acid(Non-covalent)

9BC.1: 22 residues within 4Å: Chain A: Y.19, A.20, G.22, L.23, A.24, N.25, L.96, Y.99, Y.100, F.253, F.254, S.255, G.257, P.258, L.260, S.356, Q.357, T.360, A.414, G.415, I.418 Ligands: NA.3 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:L.96, A:F.253, A:F.253, A:F.254, A:L.260, A:A.414, A:I.418, A:I.418 Hydrogen bonds: A:G.22, A:L.23, A:A.24 pi-Stacking: A:F.254

1 x CLR: CHOLESTEROL(Non-covalent)

CLR.2: 9 residues within 4Å: Chain A: V.10, L.13, L.14, I.17, L.205, Y.208, L.212, I.286, I.293 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.13, A:L.14, A:I.17, A:L.205, A:Y.208, A:Y.208, A:Y.208, A:L.212, A:I.286, A:I.293

2 x NA: SODIUM ION(Non-functional Binders)

NA.3: 7 residues within 4Å: Chain A: A.20, V.21, G.22, N.25, S.255, N.287 Ligands: 9BC.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.20, A:G.22, A:N.25 NA.4: 5 residues within 4Å: Chain A: G.18, V.21, L.352, D.355, S.356 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.18, A:D.355, A:S.356

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 4 residues within 4Å: Chain A: Y.45, Q.251, S.255, S.291 Ligand excluded by PLIP

1 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)

Y01.6: 11 residues within 4Å: Chain A: L.42, L.49, A.50, I.54, Y.277, F.285, S.288, A.289, G.451, Y.453, W.454 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.42, A:L.49, A:A.50, A:I.54, A:F.285, A:Y.453, A:W.454, A:W.454 Hydrogen bonds: A:Y.277, A:G.451

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joseph, D. et al., Structural insights into GABA transport inhibition using an engineered neurotransmitter transporter. Embo J. (2022)

Release Date

2022-06-29

Peptides

Sodium-dependent dopamine transporter: A
Antibody fragment (9D5) light chain: B
Antibody fragment (9D5) heavy chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
L

C
H

Membrane

We predict this structure to be a membrane protein.
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Sodium-dependent dopamine transporter

Antibody fragment (9D5) light chain

Antibody fragment (9D5) heavy chain

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