SMTL ID : 6xwm.1

Mechanism of substrate release in neurotransmitter:sodium symporters: the structure of LeuT in an inward-facing occluded conformation

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

2 x PHE: PHENYLALANINE(Non-covalent)

PHE.1: 16 residues within 4Å: Chain A: N.21, A.22, G.24, L.25, G.26, N.27, Y.108, F.253, T.254, S.256, F.259, A.261, S.355, A.358, I.359 Ligands: NA.3 9 PLIP interactions: 9 interactions with chain A, Hydrophobic interactions: A:A.261, A:A.358, A:I.359 Hydrogen bonds: A:G.26, A:Y.108, A:Y.108, A:S.256, A:S.256 pi-Stacking: A:F.259 PHE.4: 15 residues within 4Å: Chain B: N.21, A.22, G.24, L.25, G.26, N.27, Y.108, F.253, T.254, S.256, A.261, S.355, A.358, I.359 Ligands: NA.6 11 PLIP interactions: 10 interactions with chain B, 1 Ligand-Ligand interactions Hydrophobic interactions: B:A.261, B:A.358, B:I.359 Hydrogen bonds: B:G.26, B:N.27, B:T.254, B:T.254, B:S.256, B:S.256, F.4 pi-Stacking: B:F.259

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

NA.2: 7 residues within 4Å: Chain A: G.20, N.21, V.23, G.24, A.351, T.354, S.355 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.21 NA.3: 5 residues within 4Å: Chain A: A.22, N.27, T.254, N.286 Ligands: PHE.1 4 PLIP interactions: 2 Ligand-Ligand interactions, 2 interactions with chain A Hydrogen bonds: F.1, F.1, A:N.27, A:N.286 NA.5: 5 residues within 4Å: Chain B: G.20, V.23, A.351, T.354, S.355 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.20 NA.6: 7 residues within 4Å: Chain B: A.22, V.23, G.24, N.27, T.254, N.286 Ligands: PHE.4 7 PLIP interactions: 5 interactions with chain B, 2 Ligand-Ligand interactions Hydrogen bonds: B:G.24, B:N.27, B:N.27, B:T.254, B:N.286, F.4, F.4

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gotfryd, K. et al., X-ray structure of LeuT in an inward-facing occluded conformation reveals mechanism of substrate release. Nat Commun (2020)

Release Date

2020-05-06

Peptides

Na(+):neurotransmitter symporter (Snf family): AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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Na(+):neurotransmitter symporter (Snf family)