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

Structure of ThiT with pyrithiamine bound

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

1 x 218: 1-[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]-3-(2-HYDROXYETHYL)-2-METHYLPYRIDINIUM(Non-covalent)

218.1: 14 residues within 4Å: Chain A: W.44, I.46, E.48, E.94, Y.95, Y.132, H.135, A.138, G.139, W.143, Y.156, V.160, N.161 Ligands: 1PE.21 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:W.44, A:W.44, A:W.44, A:Y.95, A:Y.132, A:H.135, A:W.143, A:W.143, A:Y.156, A:V.160 Hydrogen bonds: A:H.135, A:N.161 Water bridges: A:K.131 pi-Stacking: A:H.135, A:W.143

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

BNG.2: 2 residues within 4Å: Chain A: A.25 Ligands: PG4.18 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.25

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

PEG.3: 4 residues within 4Å: Chain A: F.108, A.118, L.122 Ligands: PG4.20 No protein-ligand interaction detected (PLIP) PEG.4: 7 residues within 4Å: Chain A: M.78, I.85, L.88, A.91, L.96 Ligands: PEG.5, PG0.11 No protein-ligand interaction detected (PLIP) PEG.5: 5 residues within 4Å: Chain A: I.85, L.86, S.87, L.88 Ligands: PEG.4 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.88 PEG.6: 3 residues within 4Å: Chain A: W.148, I.163 Ligands: PEG.7 No protein-ligand interaction detected (PLIP) PEG.7: 4 residues within 4Å: Chain A: V.41, I.163 Ligands: PEG.6, PG4.16 No protein-ligand interaction detected (PLIP) PEG.8: 3 residues within 4Å: Chain A: V.174, I.177, I.178 No protein-ligand interaction detected (PLIP) PEG.9: 1 residues within 4Å: Chain A: K.181 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.181, A:K.181

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

PG0.10: 5 residues within 4Å: Chain A: P.38, N.39, T.40, V.47, I.49 No protein-ligand interaction detected (PLIP) PG0.11: 4 residues within 4Å: Chain A: M.78, I.79 Ligands: PEG.4, PG4.18 No protein-ligand interaction detected (PLIP) PG0.12: 4 residues within 4Å: Chain A: I.104, L.129, L.130, F.133 No protein-ligand interaction detected (PLIP) PG0.13: 3 residues within 4Å: Chain A: L.129, Y.132, F.133 No protein-ligand interaction detected (PLIP) PG0.14: 4 residues within 4Å: Chain A: L.20, L.21, I.24, T.64 No protein-ligand interaction detected (PLIP) PG0.15: 2 residues within 4Å: Chain A: L.167, I.170 No protein-ligand interaction detected (PLIP)

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

PG4.16: 2 residues within 4Å: Chain A: V.41 Ligands: PEG.7 No protein-ligand interaction detected (PLIP) PG4.17: 4 residues within 4Å: Chain A: G.150, W.151, G.152, A.155 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.152 Water bridges: A:G.152, A:A.155 PG4.18: 6 residues within 4Å: Chain A: M.78, I.79, T.80, G.81 Ligands: BNG.2, PG0.11 No protein-ligand interaction detected (PLIP) PG4.19: 4 residues within 4Å: Chain A: L.30, I.34, L.56, F.179 No protein-ligand interaction detected (PLIP) PG4.20: 6 residues within 4Å: Chain A: L.107, F.108, R.109, Q.110, P.119 Ligands: PEG.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.109

1 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.21: 12 residues within 4Å: Chain A: S.35, N.39, T.40, G.43, W.44, I.46, E.48, A.50, W.73, Y.84 Ligands: 218.1, PGE.22 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.39, A:T.40, A:E.48 Water bridges: A:T.40

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.22: 4 residues within 4Å: Chain A: T.40, G.43, W.44 Ligands: 1PE.21 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.40 Water bridges: A:T.40

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Swier, L.J.Y.M. et al., Structural studies on the thiamin binding protein ThiT. To be Published

Release Date

2014-09-17

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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