SMTL ID : 4mes.1 (1 other biounit)

Crystal structure of ThiT complexed with LMG116

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

2 x BNG: nonyl beta-D-glucopyranoside(Non-covalent)

BNG.1: 1 residues within 4Å: Chain A: A.19 No protein-ligand interaction detected (PLIP) BNG.2: 5 residues within 4Å: Chain A: I.94, L.97, F.98, P.109, V.116 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.94, A:L.97, A:F.98

1 x 26G: 2-{3-[(4-amino-2-methylpyrimidin-5-yl)methyl]phenyl}ethanol(Non-covalent)

26G.3: 14 residues within 4Å: Chain A: W.34, I.36, E.38, E.84, Y.85, Y.122, H.125, A.128, G.129, W.133, Y.146, V.150, N.151 Ligands: PG4.10 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:I.36, A:Y.122, A:H.125, A:W.133, A:W.133, A:Y.146, A:V.150 Hydrogen bonds: A:Y.85, A:H.125, A:N.151 pi-Stacking: A:H.125, A:W.133

8 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.4: 5 residues within 4Å: Chain A: V.37, L.157, I.160, A.161 Ligands: PG4.8 No protein-ligand interaction detected (PLIP) PG4.5: 6 residues within 4Å: Chain A: L.119, Y.122, L.148, N.151, G.152 Ligands: P6G.21 No protein-ligand interaction detected (PLIP) PG4.6: 4 residues within 4Å: Chain A: V.164, I.167, I.168, K.172 No protein-ligand interaction detected (PLIP) PG4.7: 3 residues within 4Å: Chain A: L.57, S.91, L.120 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.87 PG4.8: 5 residues within 4Å: Chain A: N.29, T.30, V.31, V.37 Ligands: PG4.4 No protein-ligand interaction detected (PLIP) PG4.9: 3 residues within 4Å: Chain A: K.139, W.141 Ligands: PG0.17 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.139 PG4.10: 7 residues within 4Å: Chain A: N.29, T.30, G.33, W.34, I.36, Y.74 Ligands: 26G.3 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.29, A:T.30, A:Y.74 Water bridges: A:N.29, A:E.38, A:E.38 PG4.11: 7 residues within 4Å: Chain A: L.10, L.11, I.14, R.51, T.54, R.99, H.179 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.51, A:R.99 Water bridges: A:T.54

5 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.12: 3 residues within 4Å: Chain A: T.54, L.61, V.90 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.54 PEG.13: 6 residues within 4Å: Chain A: L.105, K.106, L.107, A.108, V.170, K.171 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.107, A:A.108, A:K.171, A:K.171 PEG.14: 4 residues within 4Å: Chain A: W.138, W.141 Ligands: PEG.15, P6G.21 No protein-ligand interaction detected (PLIP) PEG.15: 5 residues within 4Å: Chain A: V.31, Y.32, I.35, I.153 Ligands: PEG.14 No protein-ligand interaction detected (PLIP) PEG.16: 1 residues within 4Å: Chain A: Y.182 No protein-ligand interaction detected (PLIP)

1 x PG0: 2-(2-METHOXYETHOXY)ETHANOL(Non-functional Binders)

PG0.17: 5 residues within 4Å: Chain A: G.142, A.143, V.144, A.145 Ligands: PG4.9 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.142, A:V.144, A:A.145

4 x P6G: HEXAETHYLENE GLYCOL(Non-functional Binders)

P6G.18: 6 residues within 4Å: Chain A: I.75, L.76, S.77, L.78, F.82 Ligands: P6G.19 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.78 Water bridges: A:S.79 P6G.19: 6 residues within 4Å: Chain A: I.65, M.68, I.69, T.70, G.71 Ligands: P6G.18 No protein-ligand interaction detected (PLIP) P6G.20: 8 residues within 4Å: Chain A: L.20, I.24, I.27, I.39, I.42, L.46, F.169, L.176 No protein-ligand interaction detected (PLIP) P6G.21: 10 residues within 4Å: Chain A: F.115, L.119, W.141, A.145, L.148, A.149, G.152, I.156 Ligands: PG4.5, PEG.14 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.115

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Swier, L.J.Y.M. et al., Crystal structures of ThiT with small molecule modulators. To be Published

Release Date

2014-08-27

Peptides

Thiamine transporter ThiT: 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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Thiamine transporter ThiT

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