SMTL ID : 6r07.1

T. cruzi FPPS in complex with 2-(5-chlorobenzo[b]thiophen-3-yl)acetic acid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.57 Å

Oligo State

homo-dimer

Ligands

4 x 3N2: (5-chloro-1-benzothiophen-3-yl)acetic acid(Non-covalent)

3N2.1: 10 residues within 4Å: Chain A: L.157, K.160, K.207, F.212, L.216, E.238, H.242 Chain B: K.27, Y.28 Ligands: 3N2.2 7 PLIP interactions: 1 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:Y.28, A:K.160, A:F.212, A:F.212 Water bridges: A:E.238 Salt bridges: A:K.207, A:H.242 3N2.2: 9 residues within 4Å: Chain A: D.153, L.157, L.216, V.220, L.224, A.229, M.234, E.238 Ligands: 3N2.1 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:D.153, A:L.157, A:V.220 3N2.7: 10 residues within 4Å: Chain A: K.27, Y.28 Chain B: L.157, K.160, K.207, F.212, L.216, E.238, H.242 Ligands: 3N2.8 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:K.160, B:F.212, B:F.212, A:Y.28 Water bridges: B:E.238 Salt bridges: B:K.207, B:H.242 3N2.8: 9 residues within 4Å: Chain B: D.153, L.157, L.216, V.220, L.224, A.229, M.234, E.238 Ligands: 3N2.7 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:D.153, B:L.157, B:V.220 Hydrogen bonds: B:E.238

4 x ZN: ZINC ION(Non-covalent)

ZN.3: 2 residues within 4Å: Chain A: D.100, D.104 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.100, A:D.104, H2O.1, H2O.2, H2O.6 ZN.4: 1 residues within 4Å: Chain A: D.252 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.252, H2O.1, H2O.1, H2O.5, H2O.8 ZN.9: 2 residues within 4Å: Chain B: D.100, D.104 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.100, B:D.104, H2O.12, H2O.12, H2O.16 ZN.10: 1 residues within 4Å: Chain B: D.252 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:D.252, H2O.11, H2O.11, H2O.15, H2O.18

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.5: 7 residues within 4Å: Chain A: G.49, K.50, Y.51, F.52, R.53, Q.93, R.110 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:K.50, A:Y.51, A:F.52 Water bridges: A:R.53, A:R.53, A:R.53, A:R.53, A:E.90, A:R.110, A:R.110 Salt bridges: A:R.53, A:R.110 SO4.11: 7 residues within 4Å: Chain B: G.49, K.50, Y.51, F.52, R.53, Q.93, R.110 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:K.50, B:Y.51, B:F.52 Water bridges: B:R.53, B:R.53, B:R.53, B:R.53, B:E.90, B:R.110, B:R.110 Salt bridges: B:R.53, B:R.110

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

DMS.6: 7 residues within 4Å: Chain A: Y.96, L.97, D.100, T.165, Q.169, K.209, Y.213 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:D.100 DMS.12: 7 residues within 4Å: Chain B: Y.96, L.97, D.100, T.165, Q.169, K.209, Y.213 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:D.100

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Petrick, J.K. et al., Targeting farnesyl pyrophosphate synthase of Trypanosoma cruzi by fragment-based lead discovery. Thesis (2019)

Release Date

2020-04-01

Peptides

Farnesyl diphosphate synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Farnesyl diphosphate synthase

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