SMTL ID : 6r0a.1

T. cruzi FPPS in complex with 3-((4-(benzo[d]thiazol-2-yl)piperazin-1-yl)methyl)-1H-indol-5-ol

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.32 Å

Oligo State

homo-dimer

Ligands

4 x JMT: 3-[[4-(1,3-benzothiazol-2-yl)piperazin-1-yl]methyl]-1~{H}-indol-5-ol(Non-covalent)

JMT.1: 9 residues within 4Å: Chain A: V.254, F.258, K.311, R.312, S.315, L.319, Q.320, F.323 Ligands: ACT.3 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:V.254, A:K.311, A:K.311, A:F.323 Hydrogen bonds: A:S.315, A:S.315, A:Q.320 Water bridges: A:F.258 pi-Stacking: A:F.258, A:F.258 JMT.2: 11 residues within 4Å: Chain A: M.176, C.177, Q.188, P.189, M.190, T.269, E.272, D.273, G.300, E.301, K.302 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Q.188, A:M.190, A:E.272, A:K.302, A:K.302 Hydrogen bonds: A:T.269, A:D.273 JMT.7: 9 residues within 4Å: Chain B: V.254, F.258, K.311, R.312, S.315, L.319, Q.320, F.323 Ligands: ACT.9 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:V.254, B:K.311, B:K.311, B:F.323 Hydrogen bonds: B:S.315, B:S.315, B:Q.320 Water bridges: B:F.258 pi-Stacking: B:F.258, B:F.258 JMT.8: 11 residues within 4Å: Chain B: M.176, C.177, Q.188, P.189, M.190, T.269, E.272, D.273, G.300, E.301, K.302 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:Q.188, B:M.190, B:E.272, B:K.302, B:K.302 Hydrogen bonds: B:D.273

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 1 residues within 4Å: Ligands: JMT.1 No protein-ligand interaction detected (PLIP) ACT.9: 1 residues within 4Å: Ligands: JMT.7 No protein-ligand interaction detected (PLIP)

4 x ZN: ZINC ION(Non-covalent)

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.4, H2O.5 ZN.5: 3 residues within 4Å: Chain A: D.100, D.104, D.172 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.100, A:D.104, H2O.1, H2O.4, H2O.4 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.15, H2O.15, H2O.18, H2O.19 ZN.11: 3 residues within 4Å: Chain B: D.100, D.104, D.172 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.100, B:D.104, H2O.15, H2O.18, H2O.18

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

SO4.6: 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, A:Q.93, A:R.110 Water bridges: A:R.53, A:R.53, A:R.53, A:E.90, A:Q.93, A:Q.93 Salt bridges: A:R.53 SO4.12: 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, B:Q.93, B:R.110 Water bridges: B:R.53, B:R.53, B:R.53, B:E.90, B:Q.93, B:Q.93 Salt bridges: B:R.53

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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