SMTL ID : 2e93.1

S. cerevisiae geranylgeranyl pyrophosphate synthase in complex with BPH-629

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.12 Å

Oligo State

homo-dimer

Ligands

4 x B29: [2-(3-DIBENZOFURAN-4-YL-PHENYL)-1-HYDROXY-1-PHOSPHONO-ETHYL]-PHOSPHONIC ACID(Non-covalent)

B29.1: 16 residues within 4Å: Chain A: L.72, S.76, L.77, D.80, E.83, R.89, Y.112, L.140, L.143, H.144, Q.147, K.174, Q.211, D.214, K.228 Ligands: B29.2 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:L.72, A:L.77, A:D.80, A:Y.112, A:L.140, A:L.143, A:Q.147 Hydrogen bonds: A:R.89, A:R.89, A:K.174, A:Q.211, A:D.214, A:K.228 Water bridges: A:D.84, A:D.214, A:D.215, A:K.228, A:K.238, A:K.238 pi-Cation interactions: A:K.174 B29.2: 14 residues within 4Å: Chain A: G.40, K.41, R.44, V.69, E.70, H.73, L.77, R.89, R.90, L.178, F.179, Y.210, K.228 Ligands: B29.1 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:K.41, A:R.44, A:R.44, A:V.69, A:E.70, A:L.178 Hydrogen bonds: A:K.41, A:H.73, A:R.89, A:R.90, A:K.228 pi-Stacking: A:F.179, A:Y.210 pi-Cation interactions: A:R.44, A:H.73 B29.3: 13 residues within 4Å: Chain B: G.40, K.41, R.44, L.47, H.73, L.77, R.89, R.90, L.178, F.179, T.182, Y.210 Ligands: B29.4 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:K.41, B:L.47, B:L.178, B:F.179, B:F.179, B:F.179, B:F.179 Hydrogen bonds: B:K.41, B:R.44, B:R.89, B:R.90 pi-Stacking: B:H.73 B29.4: 17 residues within 4Å: Chain B: L.72, S.76, L.77, D.80, E.83, R.89, Y.112, L.140, L.143, H.144, Q.147, K.174, Y.210, Q.211, D.214, K.238 Ligands: B29.3 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:L.72, B:L.77, B:D.80, B:Y.112, B:L.140, B:L.143, B:Q.147 Hydrogen bonds: B:D.80, B:R.89, B:R.89, B:K.174, B:Y.210, B:Y.210, B:Q.211, B:D.214, B:K.238 pi-Cation interactions: B:K.174

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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