SMTL ID : 8ft4.1

Multicrystal structure of Na+, leucine-bound LeuT determined at 5 keV

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 4.00 Å

Oligo State

monomer

Ligands

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

NA.1: 6 residues within 4Å: Chain A: G.20, V.23, G.24, A.351, T.354, S.355 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.355 NA.2: 7 residues within 4Å: Chain A: A.22, V.23, N.27, T.254, N.286, E.290 Ligands: LEU.4 6 PLIP interactions: 5 interactions with chain A, 1 Ligand-Ligand interactions Hydrogen bonds: A:G.24, A:N.27, A:N.286, A:E.290, A:E.290, L.4

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

CL.3: 2 residues within 4Å: Chain A: K.121, S.165 Ligand excluded by PLIP CL.11: 1 residues within 4Å: Chain A: W.481 Ligand excluded by PLIP

1 x LEU: LEUCINE(Non-covalent)

LEU.4: 14 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, S.355, I.359 Ligands: NA.2 8 PLIP interactions: 8 interactions with chain A, Hydrophobic interactions: A:F.253, A:F.259 Hydrogen bonds: A:A.22, A:G.24, A:G.26, A:N.27, A:Y.108, A:S.256

6 x BOG: octyl beta-D-glucopyranoside(Non-covalent)

BOG.5: 7 residues within 4Å: Chain A: L.52, L.53, P.445, R.446, I.447, Y.448, V.451 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.53, A:I.447, A:Y.448, A:Y.448, A:V.451 Hydrogen bonds: A:R.446 Water bridges: A:I.447 BOG.6: 4 residues within 4Å: Chain A: I.120, L.166, F.167, I.174 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:I.120, A:F.167, A:F.167, A:I.174 Water bridges: A:L.166, A:L.166 BOG.7: 6 residues within 4Å: Chain A: P.164, L.166, Y.169, H.391, F.395 Ligands: BOG.8 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:P.164 BOG.8: 5 residues within 4Å: Chain A: K.163, H.391, F.395 Ligands: BOG.7, BOG.9 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:H.391, A:F.395, A:F.395 Hydrogen bonds: A:K.163 BOG.9: 4 residues within 4Å: Chain A: I.161, F.395, L.396 Ligands: BOG.8 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.161, A:F.395, A:L.396 BOG.10: 6 residues within 4Å: Chain A: L.29, I.111, F.253, A.319, D.401, D.404 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.29, A:I.111, A:F.253, A:A.319

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Karasawa, A. et al., Crystallographic characterization of sodium ions in a bacterial leucine/sodium symporter. To be Published

Release Date

2023-11-22

Peptides

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

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