SMTL ID : 6a2c.1

Crystal structure of a synthase 2 from santalum album in complex with lig2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.94 Å

Oligo State

homo-dimer

Ligands

2 x FPP: FARNESYL DIPHOSPHATE(Non-covalent)

FPP.1: 20 residues within 4Å: Chain A: S.285, Y.288, A.289, M.292, E.305, G.309, I.312, T.313, D.316, D.320, I.417, F.419, L.422, R.457, N.460, K.476, Y.536 Ligands: MG.2, MG.3, MG.4 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:Y.288, A:A.289, A:I.312, A:I.417, A:F.419, A:L.422 Hydrogen bonds: A:S.416, A:N.460 Water bridges: A:D.316, A:S.416, A:R.457, A:R.457, A:R.457, A:K.476 Salt bridges: A:R.457, A:K.476 FPP.5: 18 residues within 4Å: Chain B: Q.284, S.285, Y.288, A.289, M.292, E.305, G.309, I.312, T.313, D.316, D.320, I.417, L.422, R.457, N.460 Ligands: MG.6, MG.7, MG.8 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:Y.288, B:Y.288, B:A.289, B:I.312, B:T.313, B:L.422 Hydrogen bonds: B:D.316, B:N.460 Water bridges: B:S.416, B:R.457, B:R.457 Salt bridges: B:R.457

6 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: D.316, D.320 Ligands: FPP.1, MG.3 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.316, A:D.320, H2O.2, H2O.3, H2O.5 MG.3: 4 residues within 4Å: Chain A: D.316, D.320 Ligands: FPP.1, MG.2 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.316, A:D.320, H2O.3, H2O.9 MG.4: 3 residues within 4Å: Chain A: N.460, K.476 Ligands: FPP.1 No protein-ligand interaction detected (PLIP) MG.6: 3 residues within 4Å: Chain B: R.457, N.460 Ligands: FPP.5 No protein-ligand interaction detected (PLIP) MG.7: 4 residues within 4Å: Chain B: D.316, D.320 Ligands: FPP.5, MG.8 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.316, B:D.320 MG.8: 5 residues within 4Å: Chain B: D.316, D.320, E.394 Ligands: FPP.5, MG.7 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.316, B:D.320, H2O.22, H2O.23, H2O.26

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Han, X. et al., Crystal structure of a synthase 2 from santalum album in complex with lig2. To be published

Release Date

2019-06-12

Peptides

Sesquisabinene B synthase 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Sesquisabinene B synthase 2

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