SMTL ID : 6a1d.1

Crystal structure of a synthase 1 from Santalum album in complex with ligand

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.78 Å

Oligo State

monomer

Ligands

1 x 6R2: [bis(chloranyl)-[oxidanyl-[(2~{E},6~{E})-3,7,11-trimethyldodeca-2,6,10-trienoxy]phosphoryl]methyl]phosphonic acid(Non-covalent)

6R2.1: 18 residues within 4Å: Chain A: Q.284, S.285, Y.288, A.289, E.305, G.309, I.312, D.316, D.320, I.417, F.419, L.422, R.457, N.460, K.476, Y.536 Ligands: MG.2, MG.3 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:Y.288, A:Y.288, A:Y.288, A:Y.288, A:A.289, A:I.312, A:I.417, A:F.419, A:F.419, A:L.422 Hydrogen bonds: A:R.457, A:R.457, A:K.476, A:K.476 Water bridges: A:D.317, A:E.394, A:E.394, A:E.394, A:N.460 Halogen bonds: A:N.460

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: D.316, D.320 Ligands: 6R2.1, MG.3 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.316, A:D.320, H2O.5, H2O.8 MG.3: 5 residues within 4Å: Chain A: D.316, D.320, E.394 Ligands: 6R2.1, MG.2 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.316, A:D.320, H2O.4, H2O.7, H2O.8

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 3 residues within 4Å: Chain A: W.174, K.509, E.513 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.509

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Han, X. et al., Crystal structure of a synthase 1 from Santalum album in complex with ligand. To Be Published

Release Date

2019-06-12

Peptides

Sesquisabinene B synthase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Sesquisabinene B synthase 1

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