SMTL ID : 3egt.1

T. Brucei Farnesyl Diphosphate Synthase Complexed with Bisphosphonate BPH-722

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

6 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: D.149, D.153 Ligands: MG.3, 722.4 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.149, A:D.153, H2O.1, H2O.5 MG.2: 2 residues within 4Å: Chain A: D.301 Ligands: 722.4 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.301, H2O.1, H2O.2, H2O.5 MG.3: 6 residues within 4Å: Chain A: D.149, D.153, Q.218, D.221 Ligands: MG.1, 722.4 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.149, A:D.153, H2O.1, H2O.1, H2O.3 MG.5: 4 residues within 4Å: Chain B: D.149, D.153 Ligands: MG.7, 722.8 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.149, B:D.153, H2O.8, H2O.10 MG.6: 3 residues within 4Å: Chain B: D.301, D.305 Ligands: 722.8 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.301, H2O.6, H2O.10, H2O.10 MG.7: 5 residues within 4Å: Chain B: D.149, D.153, D.221 Ligands: MG.5, 722.8 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.149, B:D.153, H2O.6, H2O.7, H2O.10

2 x 722: 1-(2,2-diphosphonoethyl)-3-(heptyloxy)pyridinium(Non-covalent)

722.4: 21 residues within 4Å: Chain A: Y.145, L.146, E.148, D.149, M.152, D.153, R.158, T.214, A.215, Q.218, K.258, T.259, Y.262, Q.298, D.301, K.315 Chain B: N.177, L.180 Ligands: MG.1, MG.2, MG.3 19 PLIP interactions: 18 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:Y.145, A:E.148, A:T.214, A:Q.218, A:Q.218, B:L.180 Hydrogen bonds: A:R.158, A:R.158, A:K.258, A:Q.298, A:K.315, A:K.315 Water bridges: A:S.155, A:S.155, A:S.155, A:Q.218, A:D.301, A:D.301, A:K.324 722.8: 19 residues within 4Å: Chain A: I.176, N.177, L.180 Chain B: Y.145, E.148, D.149, M.152, D.153, R.158, T.214, Q.218, K.258, T.259, Q.298, D.301, K.315 Ligands: MG.5, MG.6, MG.7 21 PLIP interactions: 19 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:Y.145, B:E.148, B:T.214, B:Q.218, B:K.258, A:I.176, A:L.180 Hydrogen bonds: B:D.153, B:R.158, B:R.158, B:K.258, B:Q.298, B:K.315, B:K.315, B:K.315 Water bridges: B:S.155, B:S.155, B:S.155, B:Q.218, B:Q.218, B:D.305

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, Y. et al., Lipophilic bisphosphonates as dual farnesyl/geranylgeranyl diphosphate synthase inhibitors: an X-ray and NMR investigation. J.Am.Chem.Soc. (2009)

Release Date

2009-05-05

Peptides

Farnesyl pyrophosphate synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Farnesyl pyrophosphate synthase