SMTL ID : 9j8c.1

Human Glycine Transporter 1 in the Sarcosine-Bound State with an Occluded Conformation

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

monomer

Ligands

1 x SAR: SARCOSINE(Non-covalent)

SAR.1: 12 residues within 4Å: Chain A: Y.62, A.63, G.65, L.66, G.67, N.68, Y.142, Y.316, S.317, G.319, W.322 Ligands: NA.6 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.65, A:L.66, A:G.67, A:Y.142, A:Y.142, A:Y.316, A:T.418

3 x CLR: CHOLESTEROL(Non-covalent)

CLR.2: 9 residues within 4Å: Chain A: N.475, Y.476, S.479, F.480, L.534, Y.546, F.560, L.564, V.567 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:Y.476, A:Y.476, A:F.480, A:L.534, A:Y.546, A:F.560, A:L.564, A:V.567 Water bridges: A:R.78 CLR.3: 11 residues within 4Å: Chain A: V.484, C.487, I.488, V.491, Y.495, R.523, F.524, P.527, I.530, F.531, L.534 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:V.484, A:V.484, A:I.488, A:V.491, A:Y.495, A:Y.495, A:P.527, A:I.530, A:F.531, A:L.534 CLR.4: 7 residues within 4Å: Chain A: L.234, G.238, G.241, W.244, A.451, V.452, F.455 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:A.451, A:V.452, A:F.455

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

CL.5: 4 residues within 4Å: Chain A: Y.88, Q.313, S.317, S.353 Ligand excluded by PLIP

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

NA.6: 5 residues within 4Å: Chain A: A.63, N.68, S.317, N.349 Ligands: SAR.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.63, A:N.68, A:N.349 NA.7: 6 residues within 4Å: Chain A: G.61, V.64, G.65, L.414, G.417, T.418 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.414, A:T.418

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, N. et al., Modulation of the human GlyT1 by clinical drugs and cholesterol. Nat Commun (2025)

Release Date

2025-03-05

Peptides

Isoform GlyT-1B of Sodium- and chloride-dependent glycine 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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Isoform GlyT-1B of Sodium- and chloride-dependent glycine transporter 1

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