SMTL ID : 1tkb.1

SPECIFICITY OF COENZYME BINDING IN THIAMIN DIPHOSPHATE DEPENDENT ENZYMES: CRYSTAL STRUCTURES OF YEAST TRANSKETOLASE IN COMPLEX WITH ANALOGS OF THIAMIN DIPHOSPHATE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: D.155, N.185, I.187 Ligands: N1T.2 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.155, A:I.187 CA.3: 4 residues within 4Å: Chain B: D.155, N.185, I.187 Ligands: N1T.4 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.155, B:I.187

2 x N1T: 1'-DEAZO-THIAMIN DIPHOSPHATE(Non-covalent)

N1T.2: 22 residues within 4Å: Chain A: A.31, H.67, G.114, P.115, L.116, G.154, D.155, G.156, E.160, N.185, I.187, T.188, I.189, I.248, H.261 Chain B: D.380, I.414, E.416, F.443, Y.446, H.479 Ligands: CA.1 18 PLIP interactions: 13 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:L.116, A:I.189, A:I.189, B:I.414, B:I.414, B:F.443, B:Y.446 Hydrogen bonds: A:G.114, A:L.116, A:D.155, A:D.155, A:G.156, A:I.187 Salt bridges: A:H.67, A:H.67, A:H.261, A:H.261 pi-Stacking: B:F.443 N1T.4: 22 residues within 4Å: Chain A: D.380, L.381, I.414, E.416, F.443, Y.446, H.479 Chain B: A.31, H.67, G.114, P.115, L.116, D.155, G.156, E.160, N.185, I.187, T.188, I.189, I.248, H.261 Ligands: CA.3 16 PLIP interactions: 11 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:L.116, B:I.189, A:L.381, A:I.414, A:F.443, A:Y.446 Hydrogen bonds: B:G.114, B:L.116, B:D.155, B:D.155, B:G.156 Salt bridges: B:H.67, B:H.67, B:H.261, B:H.261 pi-Stacking: A:F.443

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Konig, S. et al., Specificity of coenzyme binding in thiamin diphosphate-dependent enzymes. Crystal structures of yeast transketolase in complex with analogs of thiamin diphosphate. J.Biol.Chem. (1994)

Release Date

1994-11-30

Peptides

TRANSKETOLASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

TRANSKETOLASE

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