SMTL ID : 5ksx.1

Crystal structure of human FPPS in complex with an allosteric inhibitor AM-02-072

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

homo-dimer

Ligands

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 5 residues within 4Å: Chain A: G.78, K.79, R.82, Q.118, R.135 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:K.79, A:R.82, A:Q.118 Water bridges: A:Y.80, A:Y.80, A:N.81, A:N.81, A:R.82 Salt bridges: A:K.79, A:R.135 PO4.4: 5 residues within 4Å: Chain B: G.78, K.79, R.82, Q.118, R.135 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:K.79, B:R.82, B:Q.118 Water bridges: B:Y.80, B:Y.80, B:N.81, B:N.81, B:R.82 Salt bridges: B:K.79, B:R.135

4 x 7AM: [[(2~{S})-2-[[6-(4-methylphenyl)thieno[2,3-d]pyrimidin-4-yl]amino]-3-phenyl-propanoyl]amino]phosphonic acid(Non-covalent)

7AM.2: 9 residues within 4Å: Chain A: E.340, E.341, Y.344, M.348, A.367, R.368, Y.371, K.372, R.373 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:E.340, A:E.341, A:Y.344, A:R.368 Hydrogen bonds: A:Y.344, A:Y.371, A:R.373 pi-Stacking: A:Y.344, A:Y.344 7AM.3: 9 residues within 4Å: Chain A: K.79, N.81, S.227, F.228, F.261, R.368, K.369, I.370, K.372 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:N.81, A:F.228, A:F.228, A:F.261, A:F.261, A:K.372 Hydrogen bonds: A:K.79, A:R.368, A:K.369, A:K.369, A:K.369 Water bridges: A:N.81, A:N.81 7AM.5: 9 residues within 4Å: Chain B: E.340, E.341, Y.344, M.348, A.367, R.368, Y.371, K.372, R.373 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:E.340, B:E.341, B:Y.344, B:R.368 Hydrogen bonds: B:Y.371, B:R.373 pi-Stacking: B:Y.344, B:Y.344 7AM.6: 9 residues within 4Å: Chain B: K.79, N.81, S.227, F.228, F.261, R.368, K.369, I.370, K.372 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:N.81, B:F.228, B:F.228, B:F.261, B:F.261, B:K.372 Hydrogen bonds: B:K.79, B:R.368, B:K.369, B:K.369, B:K.369 Water bridges: B:N.81, B:N.81

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Park, J. et al., Pharmacophore Mapping of Thienopyrimidine-Based Monophosphonate (ThP-MP) Inhibitors of the Human Farnesyl Pyrophosphate Synthase. J. Med. Chem. (2017)

Release Date

2017-03-15

Peptides

Farnesyl pyrophosphate synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
F

B
F

Farnesyl pyrophosphate synthase

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