5QPV

PanDDA analysis group deposition -- Crystal Structure of T. cruzi FPPS in complex with FMOPL000416a

• PDB DOI: https://doi.org/10.2210/pdb5QPV/pdb
• Deposition Group: G_1002063 (changed state) ExploreG_1002063

• Classification: TRANSFERASE
• Organism(s): Trypanosoma cruzi
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2019-03-12 Released: 2020-04-29 
• Deposition Author(s): Petrick, J.K., Nelson, E.R., Muenzker, L., Krojer, T., Douangamath, A., Brandao-Neto, J., von Delft, F., Dekker, C., Jahnke, W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.237 
• R-Value Work: 0.196 
• R-Value Observed: 0.198 

Literature

PanDDA analysis group deposition - FPPS screened against the DSI Fragment Library

Petrick, J.K., Muenzker, L., von Delft, F., Jahnke, W.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 42.09 kDa 
• Atom Count: 3,249 
• Modelled Residue Count: 360 
• Deposited Residue Count: 364 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Farnesyl diphosphate synthase	A	364	Trypanosoma cruzi	Mutation(s): 0
UniProt
Find proteins for Q8WS26 (Trypanosoma cruzi) Explore Q8WS26  Go to UniProtKB:  Q8WS26

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
LWA (Subject of Investigation/LOI)	E [auth A], F [auth A]	(2~{S})-~{N}-(4-aminocarbonylphenyl)oxolane-2-carboxamide C12 H14 N2 O3 FSZYBIFIACXSAG-JTQLQIEISA-N
SO4	B [auth A], C [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
ZN	D [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.237 
• R-Value Work: 0.196 
• R-Value Observed: 0.198 
• Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.831	α = 90
b = 57.831	β = 90
c = 397.468	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
Aimless	data scaling
PDB_EXTRACT	data extraction
XDS	data reduction
REFMAC	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2020-04-29 
Deposition Author(s): Petrick, J.K., Nelson, E.R., Muenzker, L., Krojer, T., Douangamath, A., Brandao-Neto, J., von Delft, F., Dekker, C., Jahnke, W.

Revision History  

• Version 1.0: 2020-04-29
  Type: Initial release
  
• Version 1.1: 2024-03-06
  Changes: Data collection, Database references