SMTL ID : 2i19.1

T. Brucei farnesyl diphosphate synthase complexed with bisphosphonate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.28 Å

Oligo State

homo-dimer

Ligands

6 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: D.126, D.130 Ligands: MG.2, 1BY.4 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.126, A:D.130, H2O.6 MG.2: 5 residues within 4Å: Chain A: D.126, D.130, D.198 Ligands: MG.1, 1BY.4 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.126, A:D.130, A:D.130, H2O.1 MG.3: 4 residues within 4Å: Chain A: D.278, D.282, K.292 Ligands: 1BY.4 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.278, H2O.5 MG.5: 4 residues within 4Å: Chain B: D.126, D.130 Ligands: MG.7, 1BY.8 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.126, B:D.130, H2O.13 MG.6: 3 residues within 4Å: Chain B: D.278, D.296 Ligands: 1BY.8 No protein-ligand interaction detected (PLIP) MG.7: 5 residues within 4Å: Chain B: D.126, D.130, D.198 Ligands: MG.5, 1BY.8 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.126, B:D.130, B:D.130, H2O.8

2 x 1BY: [2-(PYRIDIN-2-YLAMINO)ETHANE-1,1-DIYL]BIS(PHOSPHONIC ACID)(Non-covalent)

1BY.4: 12 residues within 4Å: Chain A: Y.122, L.123, D.126, D.130, R.135, T.191, Q.195, K.235, K.292 Ligands: MG.1, MG.2, MG.3 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:Y.122, A:L.123, A:D.126, A:T.191, A:Q.195 Hydrogen bonds: A:D.126, A:R.135, A:R.135, A:K.292 Water bridges: A:S.132, A:K.235 1BY.8: 13 residues within 4Å: Chain B: Y.122, L.123, D.126, D.130, R.135, T.191, Q.195, K.235, Y.239, K.292 Ligands: MG.5, MG.6, MG.7 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:Y.122, B:D.126, B:T.191, B:Q.195 Hydrogen bonds: B:R.135 Water bridges: B:D.127, B:S.132, B:S.132, B:Q.195, B:Q.275, B:K.292, B:K.292

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mao, J. et al., Solid-state NMR, crystallographic, and computational investigation of bisphosphonates and farnesyl diphosphate synthase-bisphosphonate complexes. J.Am.Chem.Soc. (2006)

Release Date

2006-10-17

Peptides

Farnesyl pyrophosphate synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Farnesyl pyrophosphate synthase

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