SMTL ID : 7y7y.1

Cryo-EM structure of human GABA transporter GAT1 bound with nipecotic acid in NaCl solution in an inward-occluded state at 2.4 angstrom

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

monomer

Ligands

1 x ID7: (3R)-piperidine-3-carboxylic acid(Non-covalent)

ID7.1: 12 residues within 4Å: Chain A: Y.60, A.61, G.63, L.64, G.65, N.66, Y.140, F.294, S.295, G.297, S.396 Ligands: NA.5 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:Y.60 Hydrogen bonds: A:G.63, A:G.65, A:N.66, A:Y.140 Water bridges: A:F.294

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

NAG.2: 2 residues within 4Å: Chain A: N.181, T.183 No protein-ligand interaction detected (PLIP) NAG.3: 1 residues within 4Å: Chain A: N.176 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.176 NAG.4: 1 residues within 4Å: Chain A: N.184 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.184

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

NA.5: 7 residues within 4Å: Chain A: A.61, I.62, G.63, N.66, S.295, N.327 Ligands: ID7.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.63, A:N.66, A:N.66, A:N.66, A:N.327 NA.6: 5 residues within 4Å: Chain A: G.59, I.62, L.392, D.395, S.396 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.396, A:S.396

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

CL.7: 5 residues within 4Å: Chain A: F.70, Y.86, Q.291, S.295, S.331 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhu, A. et al., Molecular basis for substrate recognition and transport of human GABA transporter GAT1. Nat.Struct.Mol.Biol. (2023)

Release Date

2023-04-26

Peptides

Sodium- and chloride-dependent GABA transporter 1: 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- and chloride-dependent GABA transporter 1

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