SMTL ID : 1gpu.1

Transketolase complex with reaction intermediate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.86 Å

Oligo State

homo-dimer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: D.157, N.187, I.189 Ligands: THD.2 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.157, A:I.189, H2O.6 CA.3: 6 residues within 4Å: Chain B: G.156, D.157, D.185, N.187, I.189 Ligands: THD.4 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.157

2 x THD: 2-[3-[(4-AMINO-2-METHYL-5-PYRIMIDINYL)METHYL]-2-(1,2-DIHYDROXYETHYL)-4-METHYL-1,3-THIAZOL-3-IUM-5-YL]ETHYL TRIHYDROGEN DIPHOSPHATE(Non-covalent)

THD.2: 25 residues within 4Å: Chain A: H.30, A.33, H.69, H.103, G.116, P.117, L.118, D.157, G.158, E.162, N.187, I.189, T.190, I.191, I.250, H.263 Chain B: D.382, L.383, I.416, E.418, F.442, F.445, Y.448, H.481 Ligands: CA.1 23 PLIP interactions: 18 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:H.103, A:G.116, A:L.118, A:D.157, A:D.157, A:G.158, A:N.187, A:I.189 Water bridges: A:A.33, A:N.67, A:H.69, A:C.159, A:D.185, A:D.185, A:D.185, B:T.441 Salt bridges: A:H.69, A:H.69, A:H.263 Hydrophobic interactions: B:I.416, B:F.445, B:Y.448 pi-Stacking: B:F.445 THD.4: 25 residues within 4Å: Chain A: D.382, L.383, I.416, E.418, F.442, F.445, Y.448, H.481 Chain B: H.30, A.33, H.69, H.103, G.116, P.117, L.118, D.157, G.158, E.162, N.187, I.189, T.190, I.191, I.250, H.263 Ligands: CA.3 22 PLIP interactions: 17 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:I.191, B:I.191, A:I.416, A:F.445, A:Y.448 Hydrogen bonds: B:H.103, B:G.116, B:L.118, B:D.157, B:G.158, B:E.162, B:I.189 Water bridges: B:A.33, B:N.67, B:H.69, B:C.159, B:D.185, A:E.418 Salt bridges: B:H.69, B:H.69, B:H.263 pi-Stacking: A:F.445

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fiedler, E. et al., Snapshot of a Key Intermediate in Enzymatic Thiamin Catalysis: Crystal Structure of the Alpha-Carbanion of (Alpha,Beta-Dihydroxyethyl)-Thiamin Diphosphate in the Active Site of Transketolase from Saccharomyces Cerevisiae. Proc.Natl.Acad.Sci.USA (2002)

Release Date

2002-02-11

Peptides

TRANSKETOLASE 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

TRANSKETOLASE 1

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