SMTL ID : 5hje.1

Crystal Structure of Transketolase complex with sedoheptulose-7-phoaphate from Pichia Stipitis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

homo-dimer

Ligands

2 x TPP: THIAMINE DIPHOSPHATE(Non-covalent)

TPP.1: 28 residues within 4Å: Chain A: A.50, H.86, G.134, P.135, L.136, G.174, D.175, G.176, C.177, E.180, N.205, I.207, S.208, I.209, I.268, H.281 Chain B: A.398, D.399, L.400, V.433, E.435, T.458, F.459, F.462, Y.465, H.498 Ligands: CA.2, I22.3 23 PLIP interactions: 17 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:I.209, A:I.209, B:D.399, B:F.462, B:Y.465 Hydrogen bonds: A:G.134, A:L.136, A:D.175, A:D.175, A:G.176, A:E.180, A:N.205, B:H.498 Water bridges: A:A.50, A:N.84, A:N.84, A:C.177, A:N.205, B:T.458 Salt bridges: A:H.86, A:H.86, A:H.281 pi-Stacking: B:F.462 TPP.4: 28 residues within 4Å: Chain A: A.398, D.399, L.400, V.433, E.435, T.458, F.459, F.462, Y.465, H.498 Chain B: A.50, H.86, G.134, P.135, L.136, G.174, D.175, G.176, C.177, E.180, N.205, I.207, S.208, I.209, I.268, H.281 Ligands: CA.5, I22.6 21 PLIP interactions: 6 interactions with chain A, 15 interactions with chain B Hydrophobic interactions: A:D.399, A:F.462, A:Y.465, B:I.209, B:I.209 Hydrogen bonds: A:H.498, B:G.134, B:L.136, B:D.175, B:G.176, B:N.205 Water bridges: A:T.458, B:A.50, B:N.84, B:N.84, B:C.177, B:N.205 pi-Stacking: A:F.462 Salt bridges: B:H.86, B:H.86, B:H.281

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 5 residues within 4Å: Chain A: D.175, N.205, I.207, S.208 Ligands: TPP.1 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.175, A:I.207, H2O.12 CA.5: 5 residues within 4Å: Chain B: D.175, N.205, I.207, S.208 Ligands: TPP.4 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.175, B:I.207, H2O.51

2 x I22: D-ALTRO-HEPT-2-ULOSE 7-PHOSPHATE(Covalent)

I22.3: 18 residues within 4Å: Chain A: H.47, H.86, R.111, H.120, G.134, I.209, H.281, G.282 Chain B: R.376, L.400, S.403, F.459, F.462, H.486, D.494, H.498, R.545 Ligands: TPP.1 15 PLIP interactions: 10 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:D.494, B:H.498, A:H.47, A:H.120, A:H.281, A:G.282 Water bridges: B:R.376, B:S.403, B:H.486, B:D.494, B:R.545, A:R.111 Salt bridges: B:R.376, B:H.486, B:R.545 I22.6: 18 residues within 4Å: Chain A: R.376, L.400, S.403, F.459, F.462, H.486, D.494, H.498, R.545 Chain B: H.47, H.86, R.111, H.120, G.134, I.209, H.281, G.282 Ligands: TPP.4 15 PLIP interactions: 10 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:D.494, A:H.498, B:H.47, B:H.120, B:H.281, B:G.282 Water bridges: A:R.376, A:S.403, A:H.486, A:D.494, A:R.545, B:R.111 Salt bridges: A:R.376, A:H.486, A:R.545

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hsu, L.J. et al., Structural and biochemical interrogation on transketolase from Pichia stipitis for new functionality. Protein Eng. Des. Sel. (2016)

Release Date

2017-01-25

Peptides

Transketolase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Transketolase

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