SMTL ID : 1n24.1

(+)-Bornyl diphosphate synthase: Complex with Mg and product

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

6 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: D.302, D.306, E.380 Ligands: MG.3, BP2.4 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.302, A:D.306, H2O.4, H2O.4, H2O.4 MG.2: 5 residues within 4Å: Chain A: R.444, D.447, T.451, E.455 Ligands: BP2.4 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.447, A:T.451, A:E.455, H2O.4 MG.3: 6 residues within 4Å: Chain A: R.265, D.302, D.306, E.455 Ligands: MG.1, BP2.4 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.302, A:D.306, H2O.4, H2O.4 MG.5: 4 residues within 4Å: Chain B: D.302, D.306 Ligands: MG.6, BP2.8 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.302, B:D.306, H2O.10, H2O.10, H2O.10 MG.6: 5 residues within 4Å: Chain B: R.265, D.302, D.306 Ligands: MG.5, BP2.8 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.302, B:D.306, H2O.10, H2O.10 MG.7: 3 residues within 4Å: Chain B: D.447, T.451 Ligands: BP2.8 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.447, B:T.451, H2O.10

2 x BP2: (+)-BORNYL DIPHOSPHATE(Non-covalent)

BP2.4: 19 residues within 4Å: Chain A: R.265, W.274, A.298, T.299, D.302, D.306, S.402, V.403, R.444, D.447, T.451, E.455, D.460, K.463, Y.523, F.529 Ligands: MG.1, MG.2, MG.3 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:W.274, A:A.298, A:V.403, A:F.529, A:F.529 Hydrogen bonds: A:T.451, A:E.455 Water bridges: A:R.265, A:R.265, A:R.444, A:R.458, A:R.458, A:R.458, A:K.463, A:K.463, A:Y.523 Salt bridges: A:R.265, A:R.444, A:K.463 BP2.8: 17 residues within 4Å: Chain B: R.265, W.274, A.298, T.299, D.302, D.306, V.403, R.444, D.447, T.451, D.460, K.463, Y.523, F.529 Ligands: MG.5, MG.6, MG.7 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:W.274, B:A.298, B:F.529 Water bridges: B:D.302, B:D.448, B:R.458, B:D.460, B:K.463, B:K.463 Salt bridges: B:R.265, B:R.444, B:K.463

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Whittington, D.A. et al., Bornyl diphosphate synthase: Structure and strategy for carbocation manipulation by a terpenoid cyclase. Proc.Natl.Acad.Sci.USA (2002)

Release Date

2002-11-27

Peptides

(+)-bornyl diphosphate synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

(+)-bornyl diphosphate synthase

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