SMTL ID : 8y2g.1

Cryo-EM structure of human dopamine transporter in complex with methylphenidate

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

monomer

Ligands

1 x 01: methyl (2~{R})-2-phenyl-2-[(2~{R})-piperidin-2-yl]ethanoate

01.1: 10 residues within 4Å: Chain A: F.18, A.19, D.21, V.94, Y.98, F.262, S.263, L.264, F.268, S.364 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.18, A:V.94, A:F.268 Hydrogen bonds: A:D.21 pi-Stacking: A:Y.98

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.2: 3 residues within 4Å: Chain A: S.128, P.129, N.130 No protein-ligand interaction detected (PLIP) NAG.3: 2 residues within 4Å: Chain A: N.123, D.133 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.123

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

CL.4: 5 residues within 4Å: Chain A: N.24, Q.259, S.263, S.299 Ligands: NA.5 Ligand excluded by PLIP

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

NA.5: 6 residues within 4Å: Chain A: A.19, D.21, N.24, S.263, N.295 Ligands: CL.4 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.263 NA.6: 6 residues within 4Å: Chain A: G.17, V.20, D.21, L.360, D.363, S.364 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.364

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, Y. et al., Dopamine reuptake and inhibitory mechanisms in human dopamine transporter. Nature (2024)

Release Date

2024-08-14

Peptides

Sodium-dependent dopamine transporter: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

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