SMTL ID : 3b7l.1

Human farnesyl diphosphate synthase complexed with MG and minodronate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

8 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: D.106, D.110 Ligands: MG.3, M0N.5 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.106, A:D.110, H2O.9, H2O.9 MG.2: 2 residues within 4Å: Chain A: D.246 Ligands: M0N.5 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.246, H2O.9, H2O.9, H2O.9 MG.3: 5 residues within 4Å: Chain A: D.106, D.110, D.177 Ligands: MG.1, M0N.5 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.106, A:D.110, H2O.9, H2O.9, H2O.9 MG.4: 5 residues within 4Å: Chain A: D.110, T.263, D.264, D.267, K.269 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:T.263, A:D.264, H2O.9 MG.6: 4 residues within 4Å: Chain B: D.106, D.110 Ligands: MG.8, M0N.10 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.106, B:D.110, H2O.19, H2O.19 MG.7: 2 residues within 4Å: Chain B: D.246 Ligands: M0N.10 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.246, H2O.19, H2O.19, H2O.19 MG.8: 5 residues within 4Å: Chain B: D.106, D.110, D.177 Ligands: MG.6, M0N.10 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.106, B:D.110, H2O.19, H2O.19, H2O.19 MG.9: 5 residues within 4Å: Chain B: D.110, T.263, D.264, D.267, K.269 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:T.263, B:D.264, H2O.19

2 x M0N: (1-HYDROXY-2-IMIDAZO[1,2-A]PYRIDIN-3-YLETHANE-1,1-DIYL)BIS(PHOSPHONIC ACID)(Non-covalent)

M0N.5: 16 residues within 4Å: Chain A: F.102, L.103, D.106, D.110, R.115, T.170, Q.174, K.203, T.204, Y.207, Q.243, D.246, K.260 Ligands: MG.1, MG.2, MG.3 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:F.102, A:L.103, A:D.106, A:T.170, A:Q.174, A:Y.207 Hydrogen bonds: A:R.115, A:R.115, A:Y.207, A:Q.243, A:Q.243 Water bridges: A:D.106, A:D.110, A:D.110, A:S.112, A:S.112, A:Q.174, A:K.203, A:K.203, A:D.250, A:D.250 M0N.10: 16 residues within 4Å: Chain B: F.102, L.103, D.106, D.110, R.115, T.170, Q.174, K.203, T.204, Y.207, Q.243, D.246, K.260 Ligands: MG.6, MG.7, MG.8 19 PLIP interactions: 19 interactions with chain B Hydrophobic interactions: B:F.102, B:L.103, B:D.106, B:T.170, B:Q.174, B:Y.207 Hydrogen bonds: B:R.115, B:R.115, B:Q.243, B:Q.243 Water bridges: B:D.106, B:S.112, B:S.112, B:S.112, B:Q.174, B:K.203, B:K.203, B:T.204, B:K.260

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pilka, E.S. et al., Human farnesyl diphosphate synthase complexed with MG and minodronate. TO BE PUBLISHED

Release Date

2007-11-13

Peptides

Farnesyl pyrophosphate synthetase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Farnesyl pyrophosphate synthetase