SMTL ID : 5qpn.1

PanDDA analysis group deposition -- Crystal Structure of T. cruzi FPPS in complex with FMOPL000576a

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 6 residues within 4Å: Chain A: G.49, K.50, Y.51, F.52, R.53, Q.93 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:K.50, A:Y.51, A:F.52, A:Q.93 Water bridges: A:K.50, A:K.50, A:K.50, A:R.53, A:R.53, A:R.53 Salt bridges: A:K.50, A:R.53 SO4.2: 3 residues within 4Å: Chain A: F.19, Q.23, H.143 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.23 Salt bridges: A:H.143 SO4.6: 5 residues within 4Å: Chain A: K.209, Q.249, D.252 Ligands: ZN.5, LDV.7 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.249 Salt bridges: A:K.209, A:K.275 SO4.8: 6 residues within 4Å: Chain B: G.49, K.50, Y.51, F.52, R.53, Q.93 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:K.50, B:Y.51, B:F.52, B:Q.93 Water bridges: B:K.50, B:K.50, B:K.50, B:R.53, B:R.53, B:R.53 Salt bridges: B:K.50, B:R.53 SO4.9: 3 residues within 4Å: Chain B: F.19, Q.23, H.143 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.23 Salt bridges: B:H.143 SO4.13: 5 residues within 4Å: Chain B: K.209, Q.249, D.252 Ligands: ZN.12, LDV.14 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Q.249 Water bridges: B:D.172, B:D.256 Salt bridges: B:K.209, B:K.275

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

ACT.3: 3 residues within 4Å: Chain A: R.239, S.336, L.337 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.336 Salt bridges: A:R.239 ACT.10: 3 residues within 4Å: Chain B: R.239, S.336, L.337 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.336 Salt bridges: B:R.239

4 x ZN: ZINC ION(Non-covalent)

ZN.4: 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.3, H2O.4 ZN.5: 2 residues within 4Å: Chain A: D.252 Ligands: SO4.6 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.252, H2O.1, H2O.1, H2O.1, H2O.8 ZN.11: 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.13, H2O.15, H2O.16 ZN.12: 2 residues within 4Å: Chain B: D.252 Ligands: SO4.13 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:D.252, H2O.13, H2O.13, H2O.13, H2O.20

2 x LDV: 3-[(4-methylpiperidin-1-yl)methyl]-1H-indole(Non-covalent)

LDV.7: 13 residues within 4Å: Chain A: R.53, Q.93, Y.96, L.97, D.100, Q.169, K.209, T.210, Y.213, F.248, Q.249, D.252 Ligands: SO4.6 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.96, A:L.97, A:K.209 Hydrogen bonds: A:D.252 LDV.14: 13 residues within 4Å: Chain B: R.53, Q.93, Y.96, L.97, D.100, Q.169, K.209, T.210, Y.213, F.248, Q.249, D.252 Ligands: SO4.13 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:Y.96, B:L.97, B:K.209 Hydrogen bonds: B:D.252

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Petrick, J.K. et al., PanDDA analysis group deposition - FPPS screened against the DSI Fragment Library. To Be Published

Release Date

2020-04-29

Peptides

Farnesyl diphosphate synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Farnesyl diphosphate synthase

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