SMTL ID : 4umj.1

Native structure of Farnesyl Pyrophosphate Synthase from Pseudomonas aeruginosa PA01, with bound ibandronic acid molecules.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

9 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.1: 4 residues within 4Å: Chain A: D.84, D.90 Ligands: MG.2, BFQ.4 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.84, A:D.90, H2O.5, H2O.5, H2O.5 MG.2: 4 residues within 4Å: Chain A: D.84, D.90 Ligands: MG.1, BFQ.4 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.84, A:D.90, H2O.5, H2O.5 MG.3: 3 residues within 4Å: Chain A: Q.220 Ligands: BFQ.5, BFQ.6 No protein-ligand interaction detected (PLIP) MG.7: 3 residues within 4Å: Ligands: BFQ.4, BFQ.5, BFQ.6 No protein-ligand interaction detected (PLIP) MG.8: 2 residues within 4Å: Ligands: BFQ.4, BFQ.5 No protein-ligand interaction detected (PLIP) MG.9: 1 residues within 4Å: Ligands: BFQ.6 No protein-ligand interaction detected (PLIP) MG.10: 4 residues within 4Å: Chain B: D.84, D.90 Ligands: MG.11, BFQ.12 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.84, B:D.90, H2O.17, H2O.17, H2O.17 MG.11: 4 residues within 4Å: Chain B: D.84, D.90 Ligands: MG.10, BFQ.12 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.84, B:D.90, H2O.17, H2O.17 MG.14: 2 residues within 4Å: Ligands: BFQ.12, BFQ.13 No protein-ligand interaction detected (PLIP)

5 x BFQ: IBANDRONATE(Non-covalent)

BFQ.4: 14 residues within 4Å: Chain A: S.80, L.81, D.84, D.90, R.95, M.154, Q.158, K.181 Ligands: MG.1, MG.2, BFQ.5, BFQ.6, MG.7, MG.8 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.81, A:Q.158 Hydrogen bonds: A:R.95, A:R.95 Water bridges: A:Q.158, A:Q.158, A:K.181, A:Q.220 Salt bridges: A:D.84 BFQ.5: 9 residues within 4Å: Chain A: I.186, F.219, Q.220, D.223 Ligands: MG.3, BFQ.4, BFQ.6, MG.7, MG.8 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:I.186, A:F.219, A:F.219, A:F.219 Water bridges: A:R.95, A:R.95, A:R.95, A:Q.220, A:Q.220, A:Q.220, A:Q.220, A:Q.220, A:Q.220, A:D.227 Salt bridges: A:D.223 BFQ.6: 6 residues within 4Å: Chain A: D.161 Ligands: MG.3, BFQ.4, BFQ.5, MG.7, MG.9 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.181, A:K.181 Salt bridges: A:D.161 BFQ.12: 13 residues within 4Å: Chain B: S.80, L.81, D.84, D.90, R.95, M.154, Q.158, K.181, T.182 Ligands: MG.10, MG.11, BFQ.13, MG.14 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:L.81, B:Q.158, B:K.181 Hydrogen bonds: B:D.90, B:R.95, B:R.95, B:K.181 Water bridges: B:S.80, B:Q.158 Salt bridges: B:D.84 BFQ.13: 4 residues within 4Å: Chain B: D.223, D.227 Ligands: BFQ.12, MG.14 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.223, B:D.227

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schmidberger, J.W. et al., Structural Characterization of Substrate and Inhibitor Binding to Farnesyl Pyrophosphate Synthase from Pseudomonas Aeruginosa. Acta Crystallogr.,Sect.D (2015)

Release Date

2015-03-11

Peptides

GERANYLTRANSTRANSFERASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

GERANYLTRANSTRANSFERASE

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