SMTL ID : 2e8x.1

S. cerevisiae geranylgeranyl pyrophosphate synthase in complex with magnesium and GPP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.04 Å

Oligo State

homo-dimer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: D.80, D.84, Q.147 Ligands: MG.2, GPP.3 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.80, A:D.84, H2O.2, H2O.6 MG.2: 5 residues within 4Å: Chain A: D.80, D.84, R.89 Ligands: MG.1, GPP.3 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.80, A:D.84, H2O.6 MG.4: 4 residues within 4Å: Chain B: D.80, D.84 Ligands: MG.5, GPP.6 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.80, B:D.84, H2O.9, H2O.13 MG.5: 6 residues within 4Å: Chain B: D.80, D.84, Q.147, D.150 Ligands: MG.4, GPP.6 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.80, B:D.84, H2O.8, H2O.13, H2O.13

2 x GPP: GERANYL DIPHOSPHATE(Non-covalent)

GPP.3: 14 residues within 4Å: Chain A: S.76, L.77, D.80, D.84, R.89, Y.112, L.143, H.144, Q.147, K.174, K.238 Chain B: N.106 Ligands: MG.1, MG.2 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:L.77, A:L.143, A:L.143, A:Q.147 Water bridges: A:D.84, A:Q.147, A:Q.147, A:D.150, A:Q.211, A:Q.211, A:D.233 Salt bridges: A:R.89, A:K.174, A:K.238, A:K.238 GPP.6: 17 residues within 4Å: Chain A: N.106 Chain B: S.76, I.79, D.80, E.83, R.89, Y.112, L.143, H.144, Q.147, D.150, K.174, Q.211, D.214, K.238 Ligands: MG.4, MG.5 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:I.79, B:L.143, B:L.143, B:Q.147 Hydrogen bonds: B:Q.211, B:Q.211 Water bridges: B:D.80, B:D.80, B:D.214, B:K.238, B:K.238 Salt bridges: B:R.89, B:K.174, B:K.238, B:K.238

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Guo, R.T. et al., Bisphosphonates target multiple sites in both cis- and trans-prenyltransferases. Proc.Natl.Acad.Sci.Usa (2007)

Release Date

2007-06-12

Peptides

Geranylgeranyl pyrophosphate synthetase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Geranylgeranyl pyrophosphate synthetase

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