SMTL ID : 1izc.1

Crystal Structure Analysis of Macrophomate synthase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-hexamer

Ligands

6 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: R.101, E.185, D.211 Chain B: S.148 Ligands: PYR.2 5 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions, 1 Ligand-Ligand interactions Metal complexes: A:E.185, A:D.211, H2O.2, H2O.10, PYR.2 MG.3: 5 residues within 4Å: Chain B: R.101, E.185, D.211 Chain C: S.148 Ligands: PYR.4 5 PLIP interactions: 2 interactions with chain B, 1 Ligand-Ligand interactions, 2 Ligand-Water interactions Metal complexes: B:E.185, B:D.211, PYR.4, H2O.16, H2O.24 MG.5: 5 residues within 4Å: Chain A: S.148 Chain C: R.101, E.185, D.211 Ligands: PYR.6 5 PLIP interactions: 2 interactions with chain C, 1 Ligand-Ligand interactions, 2 Ligand-Water interactions Metal complexes: C:E.185, C:D.211, PYR.6, H2O.30, H2O.38 MG.7: 5 residues within 4Å: Chain D: R.101, E.185, D.211 Chain E: S.148 Ligands: PYR.8 5 PLIP interactions: 2 interactions with chain D, 1 Ligand-Ligand interactions, 2 Ligand-Water interactions Metal complexes: D:E.185, D:D.211, PYR.8, H2O.43, H2O.51 MG.9: 5 residues within 4Å: Chain E: R.101, E.185, D.211 Chain F: S.148 Ligands: PYR.10 5 PLIP interactions: 2 interactions with chain E, 1 Ligand-Ligand interactions, 2 Ligand-Water interactions Metal complexes: E:E.185, E:D.211, PYR.10, H2O.57, H2O.65 MG.11: 5 residues within 4Å: Chain D: S.148 Chain F: R.101, E.185, D.211 Ligands: PYR.12 5 PLIP interactions: 2 interactions with chain F, 1 Ligand-Ligand interactions, 2 Ligand-Water interactions Metal complexes: F:E.185, F:D.211, PYR.12, H2O.71, H2O.79

6 x PYR: PYRUVIC ACID(Non-covalent)

PYR.2: 8 residues within 4Å: Chain A: R.101, Q.183, E.185, G.208, P.209, G.210, D.211 Ligands: MG.1 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.101, A:R.101, A:Q.183, A:G.210, A:D.211 Water bridges: A:F.207 PYR.4: 8 residues within 4Å: Chain B: R.101, Q.183, E.185, G.208, P.209, G.210, D.211 Ligands: MG.3 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:R.101, B:R.101, B:Q.183, B:G.210, B:D.211 Water bridges: B:F.207 PYR.6: 8 residues within 4Å: Chain C: R.101, Q.183, E.185, G.208, P.209, G.210, D.211 Ligands: MG.5 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:R.101, C:R.101, C:Q.183, C:G.210, C:D.211 Water bridges: C:F.207 PYR.8: 8 residues within 4Å: Chain D: R.101, Q.183, E.185, G.208, P.209, G.210, D.211 Ligands: MG.7 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:R.101, D:R.101, D:Q.183, D:G.210, D:D.211 Water bridges: D:F.207 PYR.10: 8 residues within 4Å: Chain E: R.101, Q.183, E.185, G.208, P.209, G.210, D.211 Ligands: MG.9 6 PLIP interactions: 6 interactions with chain E Hydrogen bonds: E:R.101, E:R.101, E:Q.183, E:G.210, E:D.211 Water bridges: E:F.207 PYR.12: 8 residues within 4Å: Chain F: R.101, Q.183, E.185, G.208, P.209, G.210, D.211 Ligands: MG.11 6 PLIP interactions: 6 interactions with chain F Hydrogen bonds: F:R.101, F:R.101, F:Q.183, F:G.210, F:D.211 Water bridges: F:F.207

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ose, T. et al., Insight into a natural Diels-Alder reaction from the structure of macrophomate synthase. Nature (2003)

Release Date

2003-04-01

Peptides

macrophomate synthase intermolecular Diels-Alderase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

macrophomate synthase intermolecular Diels-Alderase