SMTL ID : 2e94.1

S. cerevisiae geranylgeranyl pyrophosphate synthase in complex with magnesium and BPH-364

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.18 Å

Oligo State

homo-dimer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: D.80, D.84 Ligands: 364.2 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.80, A:D.80, A:D.84, H2O.122, H2O.209

2 x 364: 3-BIPHENYL-3-YL-1-(2-HYDROXY-2,2-DIPHOSPHONOETHYL)PYRIDINIUM(Non-covalent)

364.2: 14 residues within 4Å: Chain A: V.69, H.73, D.80, D.84, R.89, K.174, L.178, F.179, T.182, Y.210, Q.211, D.214, K.238 Ligands: MG.1 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:V.69, A:L.178, A:F.179, A:Y.210 Hydrogen bonds: A:R.89, A:R.89, A:Q.211, A:D.214, A:K.238 Water bridges: A:Q.147, A:Y.210, A:D.214, A:D.214, A:D.215 pi-Stacking: A:H.73, A:F.179 364.3: 14 residues within 4Å: Chain B: R.44, V.69, H.73, L.77, D.80, D.84, R.89, K.174, L.178, T.182, Y.210, Q.211, D.214, K.238 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:R.44, B:V.69, B:L.178, B:Y.210 Hydrogen bonds: B:R.89, B:R.89, B:Y.210, B:Y.210, B:Q.211, B:K.238 Water bridges: B:D.84, B:D.214, B:D.215, B:E.236, B:K.238, B:K.238 pi-Stacking: B:H.73

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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