SMTL ID : 3zmc.1

Native structure of Farnesyl Pyrophosphate Synthase from Pseudomonas aeruginosa PA01, with bound substrate molecule Geranyl pyrophosphate.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.87 Å

Oligo State

homo-dimer

Ligands

2 x GPP: GERANYL DIPHOSPHATE(Non-covalent)

GPP.1: 12 residues within 4Å: Chain A: S.80, L.81, H.83, D.84, D.90, R.95, V.155, Q.158, K.181 Chain B: L.112 Ligands: MG.2, MG.3 12 PLIP interactions: 11 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:L.81, A:H.83, A:V.155, A:Q.158, B:L.112 Water bridges: A:Q.158, A:Q.158, A:Q.158, A:D.161, A:K.181 Salt bridges: A:R.95, A:K.181 GPP.5: 12 residues within 4Å: Chain B: S.80, L.81, H.83, D.84, D.90, R.95, M.154, V.155, Q.158, K.181 Ligands: MG.6, MG.7 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:L.81, B:H.83, B:Q.158, B:K.181 Water bridges: B:R.95, B:Q.158, B:Q.158, B:D.161 Salt bridges: B:R.95, B:K.181

5 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: D.84, D.90, R.95 Ligands: GPP.1, MG.3 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.84, A:D.90, H2O.4, H2O.4 MG.3: 5 residues within 4Å: Chain A: D.84, D.90, Q.158 Ligands: GPP.1, MG.2 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.84, A:D.90, H2O.4, H2O.4, H2O.4 MG.6: 5 residues within 4Å: Chain B: D.84, D.90, D.92 Ligands: GPP.5, MG.7 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.84, B:D.90, H2O.12, H2O.12 MG.7: 5 residues within 4Å: Chain B: D.84, D.90, Q.158 Ligands: GPP.5, MG.6 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.84, B:D.90, H2O.12, H2O.12, H2O.12 MG.8: 1 residues within 4Å: Chain B: D.224 6 PLIP interactions: 1 interactions with chain B, 5 Ligand-Water interactions Metal complexes: B:D.224, H2O.14, H2O.15, H2O.15, H2O.15, H2O.16

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.4: 5 residues within 4Å: Chain A: Q.222, V.292, E.293, R.294, R.295 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.222

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.9: 5 residues within 4Å: Chain B: Y.6, R.9, R.13, E.57, P.63 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.9, B:R.13, B:E.57 Water bridges: B:R.9

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

2014-02-26

Peptides

GERANYLTRANSTRANSFERASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

GERANYLTRANSTRANSFERASE

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