5J3U | pdb_00005j3u

Co-crystal structure of the regulatory domain of Toxoplasma gondii PKA with cAMP

• PDB DOI: https://doi.org/10.2210/pdb5J3U/pdb

• Classification: TRANSFERASE
• Organism(s): Toxoplasma gondii
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2016-03-31 Released: 2016-04-20 
• Deposition Author(s): El Bakkouri, M., Walker, J.R., Tempel, W., Loppnau, P., Graslund, S., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Hui, R., Lin, L., Structural Genomics Consortium (SGC)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 
  0.204 (Depositor), 0.189 (DCC) 
• R-Value Work: 
  0.170 (Depositor) 
• R-Value Observed: 
  0.171 (Depositor) 

Starting Models: experimental

Literature

Co-crystal structure of the regulatory domain of Toxoplasma gondii PKA with cAMP

El Bakkouri, M., Walker, J.R., Tempel, W., Loppnau, P., Graslund, S., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Hui, R., Lin, L.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Macromolecule Content 

• Total Structure Weight: 29.79 kDa 
• Atom Count: 2,438 
• Modeled Residue Count: 261 
• Deposited Residue Count: 261 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein Kinase A	A	261	Toxoplasma gondii	Mutation(s): 0  Gene Names: TGME49_311300, TGVEG_311300 EC: 2.7.11.12
UniProt
Find proteins for A0A0F7V8B2 (Toxoplasma gondii (strain ATCC 50861 / VEG)) Explore A0A0F7V8B2  Go to UniProtKB:  A0A0F7V8B2

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CMP	B [auth A], C [auth A]	ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE C10 H12 N5 O6 P IVOMOUWHDPKRLL-KQYNXXCUSA-N
GOL	D [auth A], E [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free:  0.204 (Depositor), 0.189 (DCC) 
• R-Value Work:  0.170 (Depositor) 
• R-Value Observed: 0.171 (Depositor) 

Space Group: P 2 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 36.857	α = 90
b = 59.414	β = 90
c = 120.843	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-04-20 
Deposition Author(s): El Bakkouri, M., Walker, J.R., Tempel, W., Loppnau, P., Graslund, S., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Hui, R., Lin, L., Structural Genomics Consortium (SGC)

Revision History  

• Version 1.0: 2016-04-20
  Type: Initial release
  
• Version 1.1: 2023-09-27
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.2: 2024-11-13
  Changes: Structure summary