SMTL ID : 2a65.2 (1 other biounit)

Crystal structure of LEUTAA, a bacterial homolog of Na+/Cl--dependent neurotransmitter transporters

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-dimer

Ligands

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

BOG.1: 5 residues within 4Å: Chain A: L.53, P.445, R.446, Y.448, V.451 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.53, A:Y.448, A:Y.448, A:V.451 Hydrogen bonds: A:R.446 Water bridges: A:V.444, A:I.447 BOG.2: 4 residues within 4Å: Chain A: L.166, F.167, I.170, I.174 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.167, A:F.167, A:I.170, A:I.174 Water bridges: A:L.166, A:L.166, A:L.166 BOG.3: 8 residues within 4Å: Chain A: P.164, S.165, L.166, Y.169, F.388, H.391, F.395 Ligands: BOG.4 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.388 Hydrogen bonds: A:P.164 BOG.4: 8 residues within 4Å: Chain A: K.163, H.391, L.392, F.395 Chain B: W.484, F.488 Ligands: BOG.3, BOG.5 6 PLIP interactions: 3 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:F.488, B:F.488, B:F.488, A:H.391, A:L.392 Hydrogen bonds: A:K.163 BOG.5: 14 residues within 4Å: Chain A: I.161, F.395, L.396 Chain B: M.476, E.477, E.478, T.479, H.480, W.481, V.483, W.484, I.485, R.487 Ligands: BOG.4 12 PLIP interactions: 7 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:W.481, B:I.485, A:I.161, A:I.161, A:F.395, A:L.396, A:L.396 Hydrogen bonds: B:E.477, B:T.479, B:T.479, B:R.487, B:R.487 BOG.10: 5 residues within 4Å: Chain B: L.53, P.445, R.446, Y.448, V.451 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:L.53, B:Y.448, B:Y.448, B:V.451 Hydrogen bonds: B:R.446 Water bridges: B:V.444, B:I.447 BOG.11: 4 residues within 4Å: Chain B: L.166, F.167, I.170, I.174 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:F.167, B:F.167, B:I.170, B:I.174 Water bridges: B:L.166, B:L.166, B:L.166 BOG.12: 8 residues within 4Å: Chain B: P.164, S.165, L.166, Y.169, F.388, H.391, F.395 Ligands: BOG.13 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:F.388 Hydrogen bonds: B:P.164 BOG.13: 8 residues within 4Å: Chain A: W.484, F.488 Chain B: K.163, H.391, L.392, F.395 Ligands: BOG.12, BOG.14 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:F.488, A:F.488, A:F.488, B:H.391, B:L.392 Hydrogen bonds: B:K.163 BOG.14: 14 residues within 4Å: Chain A: M.476, E.477, E.478, T.479, H.480, W.481, V.483, W.484, I.485, R.487 Chain B: I.161, F.395, L.396 Ligands: BOG.13 11 PLIP interactions: 5 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:I.161, B:I.161, B:F.395, B:L.396, B:L.396, A:W.481, A:I.485 Hydrogen bonds: A:E.477, A:T.479, A:R.487, A:R.487

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

NA.6: 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.7: 7 residues within 4Å: Chain A: A.22, V.23, G.24, N.27, T.254, N.286 Ligands: LEU.9 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Ligand interactions Hydrogen bonds: A:G.24, A:N.27, A:T.254, A:N.286, L.9, L.9 NA.15: 6 residues within 4Å: Chain B: G.20, V.23, G.24, A.351, T.354, S.355 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.354, B:T.354 NA.16: 7 residues within 4Å: Chain B: A.22, V.23, G.24, N.27, T.254, N.286 Ligands: LEU.18 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, L.18, L.18

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

CL.8: 3 residues within 4Å: Chain A: Y.151, S.165, F.167 Ligand excluded by PLIP CL.17: 3 residues within 4Å: Chain B: Y.151, S.165, F.167 Ligand excluded by PLIP

2 x LEU: LEUCINE(Non-covalent)

LEU.9: 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.7 10 PLIP interactions: 9 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:Y.108, A:F.253, A:F.259 Hydrogen bonds: A:G.24, A:G.26, A:N.27, A:T.254, A:S.256, A:S.256, L.9 LEU.18: 14 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, F.259, S.355, I.359 Ligands: NA.16 12 PLIP interactions: 11 interactions with chain B, 1 Ligand-Ligand interactions Hydrophobic interactions: B:Y.108, B:F.253, B:F.259 Hydrogen bonds: B:G.24, B:G.26, B:N.27, B:Y.108, B:T.254, B:T.254, B:S.256, B:S.256, L.18

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yamashita, A. et al., Crystal structure of a bacterial homologue of Na(+)/Cl(-)-dependent neurotransmitter transporters. Nature (2005)

Release Date

2005-08-02

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Membrane

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

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