SMTL ID : 3ooy.1

Crystal structure of human Transketolase (TKT)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-dimer

Ligands

2 x TPP: THIAMINE DIPHOSPHATE(Non-covalent)

TPP.1: 25 residues within 4Å: Chain A: S.36, K.71, H.73, G.119, S.120, L.121, G.150, D.151, G.152, E.153, E.156, N.181, L.183, G.184, Q.185, K.240, H.254 Chain B: D.337, T.338, I.360, E.362, F.388, R.391, Q.424 Ligands: CA.2 17 PLIP interactions: 13 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:G.119, A:L.121, A:D.151, A:G.152, A:E.153, A:N.181, B:Q.424 Water bridges: A:N.181, B:T.384 Salt bridges: A:K.71, A:H.73, A:H.73, A:K.240, A:K.240, A:H.254 Hydrophobic interactions: B:F.388 pi-Stacking: B:F.388 TPP.6: 25 residues within 4Å: Chain A: D.337, T.338, I.360, E.362, F.388, R.391, Q.424 Chain B: S.36, K.71, H.73, G.119, S.120, L.121, G.150, D.151, G.152, E.153, E.156, N.181, L.183, G.184, Q.185, K.240, H.254 Ligands: CA.7 17 PLIP interactions: 14 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:L.121, A:F.388 Hydrogen bonds: B:G.119, B:L.121, B:D.151, B:G.152, B:E.153, B:N.181, B:N.181, A:Q.424 Salt bridges: B:K.71, B:H.73, B:H.73, B:K.240, B:K.240, B:H.254 pi-Stacking: A:F.388

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: D.151, N.181, L.183 Ligands: TPP.1 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.151, A:L.183, H2O.1 CA.7: 4 residues within 4Å: Chain B: D.151, N.181, L.183 Ligands: TPP.6 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.151, B:L.183, H2O.11

3 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 5 residues within 4Å: Chain A: R.314, S.341, H.412, D.420, R.470 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.341 Water bridges: A:R.314, A:R.314 Salt bridges: A:R.314, A:H.412, A:R.470 ACT.8: 4 residues within 4Å: Chain B: F.138, D.329, R.377, T.378 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:T.378 ACT.9: 5 residues within 4Å: Chain B: R.314, S.341, H.412, D.420, R.470 7 PLIP interactions: 7 interactions with chain B Water bridges: B:R.314, B:R.314, B:H.412, B:R.470 Salt bridges: B:R.314, B:H.412, B:R.470

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 3 residues within 4Å: Chain A: Y.560, A.584, N.586 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.560 Water bridges: A:Y.560, A:A.584, A:N.586 EDO.5: 6 residues within 4Å: Chain A: Q.185, S.186, S.252, W.253, H.254 Chain B: N.340 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.252, A:H.254 Water bridges: A:W.253 EDO.10: 4 residues within 4Å: Chain B: Y.560, L.583, A.584, N.586 2 PLIP interactions: 2 interactions with chain B Water bridges: B:A.584, B:N.586 EDO.11: 7 residues within 4Å: Chain B: P.59, N.64, D.65, R.66, F.67, D.115, R.375 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:P.59, B:N.64, B:F.67, B:F.67, B:R.375, B:R.375 Water bridges: B:D.115 EDO.12: 5 residues within 4Å: Chain A: N.340 Chain B: Q.185, S.252, W.253, H.254 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.252, B:H.254 Water bridges: B:E.251, B:W.253

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Krojer, T. et al., Crystal structure of human Transketolase (TKT). To be Published

Release Date

2010-11-17

Peptides

Transketolase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Transketolase