SMTL ID : 5xtl.1

Crystal Structure of Transketolase in complex with aminopyrimidine and cysteine sulfonic acid adduct from Pichia Stipitis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.10 Å

Oligo State

homo-dimer

Ligands

2 x P23: PROPYL TRIHYDROGEN DIPHOSPHATE(Covalent)

P23.1: 14 residues within 4Å: Chain A: A.50, N.84, H.86, L.136, G.174, D.175, G.176, C.177, N.205, I.207, S.208, I.268, H.281 Ligands: CA.2 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:N.84, A:L.136 Hydrogen bonds: A:D.175, A:G.176, A:N.205 Water bridges: A:A.50, A:N.84, A:N.84, A:N.205 Salt bridges: A:H.86, A:H.86, A:H.281, A:H.281 P23.7: 14 residues within 4Å: Chain B: A.50, N.84, H.86, L.136, G.174, D.175, G.176, C.177, N.205, I.207, S.208, I.268, H.281 Ligands: CA.8 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:N.84, B:L.136 Hydrogen bonds: B:D.175, B:D.175, B:G.176, B:N.205 Water bridges: B:A.50, B:N.84, B:D.203, B:N.205 Salt bridges: B:H.86, B:H.86, B:H.281, B:H.281

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: D.175, N.205, I.207 Ligands: P23.1 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.175, A:I.207, H2O.7 CA.8: 4 residues within 4Å: Chain B: D.175, N.205, I.207 Ligands: P23.7 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.175, B:I.207, H2O.40

6 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 4 residues within 4Å: Chain A: A.154, A.155, N.158, K.159 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.158 Water bridges: A:Q.150, A:A.155, A:N.158, A:F.162 PEG.4: 2 residues within 4Å: Chain A: N.330, L.351 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.330 Water bridges: A:Q.326, A:N.330, A:Q.348 PEG.5: 5 residues within 4Å: Chain A: K.226, S.227, G.229 Chain B: T.218, D.220 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.258 PEG.9: 4 residues within 4Å: Chain B: A.154, A.155, N.158, K.159 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.158 Water bridges: B:Q.150, B:A.155, B:N.158, B:F.162 PEG.10: 2 residues within 4Å: Chain B: N.330, L.351 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.330 Water bridges: B:Q.326, B:N.330, B:Q.348 PEG.11: 5 residues within 4Å: Chain A: T.218, D.220 Chain B: K.226, S.227, G.229 1 PLIP interactions: 1 interactions with chain B Water bridges: B:K.258

2 x 8GF: 2-methylpyrimidin-4-amine(Non-covalent)

8GF.6: 8 residues within 4Å: Chain A: G.134, P.135, L.136, E.180 Chain B: E.435, F.462, Y.465, H.498 6 PLIP interactions: 3 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:L.136, B:F.462, B:Y.465 Hydrogen bonds: A:G.134, A:L.136 pi-Stacking: B:F.462 8GF.12: 8 residues within 4Å: Chain A: E.435, F.462, Y.465, H.498 Chain B: G.134, P.135, L.136, E.180 8 PLIP interactions: 4 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:L.136, A:F.462, A:Y.465 Hydrogen bonds: B:G.134, B:L.136, B:E.180 Water bridges: A:E.435 pi-Stacking: A:F.462

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hsu, N.S. et al., The Mesomeric Effect of Thiazolium on non-Kekule Diradicals in Pichia stipitis Transketolase. Angew. Chem. Int. Ed. Engl. (2018)

Release Date

2018-04-25

Peptides

Transketolase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Transketolase

Related Entries With Identical Sequence