SMTL ID : 8hp4.1

CtPDC complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.52 Å

Oligo State

homo-dimer

Ligands

2 x TPP: THIAMINE DIPHOSPHATE(Non-covalent)

TPP.1: 20 residues within 4Å: Chain A: G.391, T.392, G.415, S.416, I.417, G.445, D.446, G.447, S.448, N.474, G.476, Y.477, T.478, I.479, E.480 Chain B: P.26, G.27, E.51, V.78 Ligands: MG.2 19 PLIP interactions: 18 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:I.417, A:I.417, A:Y.477, A:I.479, B:V.78 Hydrogen bonds: A:T.392, A:G.415, A:I.417, A:G.445, A:D.446, A:G.447, A:S.448, A:N.474, A:T.478, A:I.479 Water bridges: A:S.393, A:D.446, A:S.448, A:S.448 TPP.3: 20 residues within 4Å: Chain A: P.26, G.27, E.51, V.78 Chain B: G.391, T.392, G.415, S.416, I.417, G.445, D.446, G.447, S.448, N.474, G.476, Y.477, T.478, I.479, E.480 Ligands: MG.4 18 PLIP interactions: 17 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:I.417, B:I.417, B:Y.477 Hydrogen bonds: B:T.392, B:G.415, B:I.417, B:G.445, B:G.447, B:S.448, B:T.478, B:T.478, B:I.479 Water bridges: B:S.393, B:D.446, B:S.448, B:S.448, B:N.474, A:E.51

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: D.446, N.474, G.476 Ligands: TPP.1 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.446, A:G.476, H2O.2 MG.4: 4 residues within 4Å: Chain B: D.446, N.474, G.476 Ligands: TPP.3 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.446, B:G.476, H2O.6

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, H.H. et al., Protein engineering of pyruvate decarboxylase to remove the rate-limiting bottleneck in the cascade pathway of tyrosol synthesis. To Be Published

Release Date

2024-01-17

Peptides

Pyruvate decarboxylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Pyruvate decarboxylase

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