SMTL ID : 5ael.1

T. Brucei Farnesyl Diphosphate Synthase Complexed with Bisphosphonate BPH-597

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

2 x QAF: {2-[3-(hex-1-yn-1-yl)pyridinium-1-yl]ethane-1,1-diyl}bis(phosphonate)(Non-covalent)

QAF.1: 17 residues within 4Å: Chain A: Y.99, L.100, D.103, D.107, R.112, A.169, Q.172, K.212, T.213, Q.252, D.255, K.269 Chain B: N.131, L.134 Ligands: MG.2, MG.3, MG.4 15 PLIP interactions: 14 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:Y.99, A:Y.99, A:Y.99, A:A.169, A:Q.172, A:K.212, B:L.134 Hydrogen bonds: A:R.112, A:R.112, A:Q.252 Water bridges: A:D.107, A:D.107, A:S.109, A:S.109, A:K.278 QAF.5: 17 residues within 4Å: Chain A: N.131, L.134 Chain B: Y.99, L.100, D.103, D.107, R.112, A.169, Q.172, K.212, T.213, Y.216, D.255, K.269 Ligands: MG.6, MG.7, MG.8 11 PLIP interactions: 10 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:Y.99, B:Y.99, B:Y.99, B:A.169, B:Q.172, B:K.212, A:L.134 Hydrogen bonds: B:R.112, B:R.112, B:Q.252 Water bridges: B:Q.172

6 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: D.103, D.107 Ligands: QAF.1, MG.4 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.103, A:D.107, H2O.1, H2O.2 MG.3: 4 residues within 4Å: Chain A: D.255, D.259, D.273 Ligands: QAF.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.255 MG.4: 7 residues within 4Å: Chain A: D.103, D.107, Q.172, D.175, K.278 Ligands: QAF.1, MG.2 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.103, A:D.107 MG.6: 4 residues within 4Å: Chain B: D.103, D.107 Ligands: QAF.5, MG.8 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.103, B:D.107, H2O.8 MG.7: 4 residues within 4Å: Chain B: D.255, D.259, D.273 Ligands: QAF.5 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.255, H2O.8 MG.8: 7 residues within 4Å: Chain B: D.103, D.107, Q.172, D.175, K.278 Ligands: QAF.5, MG.6 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.103, B:D.107, B:D.107, H2O.6

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, G. et al., Inhibition of Trypanosoma Brucei Cell Growth by Lipophilic Bisphosphonates: An in Vitro and in Vivo Investigation. Antimicrob.Agents Chemother. (2015)

Release Date

2015-10-28

Peptides

FARNESYL PYROPHOSPHATE SYNTHASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

FARNESYL PYROPHOSPHATE SYNTHASE

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