SMTL ID : 5ygi.1

Crystal structure of human FPPS in complex with an inhibitor THZ93

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.18 Å

Oligo State

monomer

Ligands

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

PO4.1: 7 residues within 4Å: Chain A: G.51, K.52, Y.53, R.55, Q.91, R.108 Ligands: PO4.2 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:K.52, A:Y.53, A:Q.91 Water bridges: A:R.55, A:R.55, A:R.55 Salt bridges: A:K.52, A:R.55, A:R.108 PO4.2: 9 residues within 4Å: Chain A: R.55, Q.91, L.95, R.107, F.234, D.238, K.252 Ligands: PO4.1, T93.6 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Q.91, A:R.107, A:D.238 Salt bridges: A:K.52, A:R.55, A:K.252

3 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 2 residues within 4Å: Chain A: D.238 Ligands: T93.6 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.238, H2O.1, H2O.1, H2O.2 MG.4: 4 residues within 4Å: Chain A: D.98, D.102 Ligands: MG.5, T93.6 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.98, A:D.102, H2O.1, H2O.2 MG.5: 6 residues within 4Å: Chain A: D.98, D.102, Q.166, D.169 Ligands: MG.4, T93.6 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.98, A:D.102, H2O.1, H2O.1, H2O.2

1 x T93: [[(4-hexoxypyridin-2-yl)amino]-phosphono-methyl]phosphonic acid(Non-covalent)

T93.6: 20 residues within 4Å: Chain A: F.93, F.94, L.95, A.97, D.98, M.101, D.102, R.107, E.163, Q.166, K.195, T.196, Y.199, Q.235, D.238, K.252 Ligands: PO4.2, MG.3, MG.4, MG.5 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:F.93, A:F.94, A:D.98, A:E.163, A:Y.199 Hydrogen bonds: A:D.98, A:R.107, A:R.107, A:K.195, A:Q.235 Water bridges: A:S.104, A:S.104, A:S.104, A:Q.166, A:Q.166, A:D.238

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xia, Y. et al., The Mevalonate Pathway Is a Druggable Target for Vaccine Adjuvant Discovery. Cell (2018)

Release Date

2018-09-26

Peptides

Farnesyl pyrophosphate synthase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Farnesyl pyrophosphate synthase

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