SMTL ID : 4muu.2 (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: 12 residues within 4Å: Chain A: W.44, I.46, E.48, E.94, Y.95, H.135, A.138, G.139, W.143, Y.156, N.161 Ligands: P6G.8 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:W.44, A:Y.95, A:W.143, A:Y.156 Hydrogen bonds: A:H.135, A:N.161 Water bridges: A:E.48 pi-Stacking: A:W.44, A:H.135, A:W.143

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

BNG.2: 9 residues within 4Å: Chain A: I.104, L.107, F.108, R.109, Q.110, P.119, V.126 Ligands: PEG.4, PGE.19 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.104, A:F.108, A:V.126 Water bridges: A:K.111, A:K.111 BNG.3: 5 residues within 4Å: Chain A: L.129, Y.132, F.133, N.161, G.162 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.129 Hydrogen bonds: A:Y.132, A:N.161

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

PEG.4: 2 residues within 4Å: Chain A: V.126 Ligands: BNG.2 No protein-ligand interaction detected (PLIP) PEG.5: 6 residues within 4Å: Chain A: Y.42, G.43, Y.146, W.148, Y.156 Ligands: P6G.8 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.42 PEG.6: 5 residues within 4Å: Chain A: A.147, W.148, K.149, G.150, W.151 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.148, A:G.150, A:W.151

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

P6G.7: 9 residues within 4Å: Chain A: M.27, L.30, I.34, I.49, I.52, P.53, L.56, F.179 Ligands: PG4.13 No protein-ligand interaction detected (PLIP) P6G.8: 10 residues within 4Å: Chain A: N.39, T.40, G.43, W.44, I.46, W.143, Y.146 Ligands: 218.1, PEG.5, P6G.9 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.39 Water bridges: A:T.40 P6G.9: 6 residues within 4Å: Chain A: T.40, G.81, H.82, A.83, Y.84 Ligands: P6G.8 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.40, A:Y.84 Water bridges: A:H.82, A:Y.84 P6G.10: 6 residues within 4Å: Chain A: K.149, G.150, W.151, V.154, A.155, L.158 1 PLIP interactions: 1 interactions with chain A Water bridges: A:G.150

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

PG0.11: 4 residues within 4Å: Chain A: I.85, L.88, A.91 Ligands: PGE.18 No protein-ligand interaction detected (PLIP) PG0.12: 8 residues within 4Å: Chain A: F.16, R.19, E.23, R.60, R.61, H.189, S.190, N.191 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.16, A:R.60

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

PG4.13: 3 residues within 4Å: Chain A: T.40, V.47 Ligands: P6G.7 No protein-ligand interaction detected (PLIP) PG4.14: 6 residues within 4Å: Chain A: L.20, R.61, T.64, V.68, R.109 Ligands: PE5.17 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.109, A:R.109 Water bridges: A:L.63, A:T.64 PG4.15: 4 residues within 4Å: Chain A: K.116, L.117, A.118, V.180 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.117, A:A.118 PG4.16: 4 residues within 4Å: Chain A: T.40, V.41, Y.42, G.43 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.43

1 x PE5: 3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL(Non-covalent)

PE5.17: 4 residues within 4Å: Chain A: A.25, A.29, L.76 Ligands: PG4.14 No protein-ligand interaction detected (PLIP)

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

PGE.18: 3 residues within 4Å: Chain A: M.78, I.79 Ligands: PG0.11 No protein-ligand interaction detected (PLIP) PGE.19: 4 residues within 4Å: Chain A: F.108, P.119, L.122 Ligands: BNG.2 No protein-ligand interaction detected (PLIP)

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
B

Membrane

We predict this structure to be a membrane protein.
Show / Hide

Thiamine transporter ThiT

Related Entries With Identical Sequence