8OJF

Arabidopsis thaliana Phosphoenolpyruvate carboxylase PPC1 with bound phosphate

• PDB DOI: https://doi.org/10.2210/pdb8OJF/pdb

• Classification: PLANT PROTEIN
• Organism(s): Arabidopsis thaliana
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2023-03-24 Released: 2023-05-31 
• Deposition Author(s): Haesaerts, S., Loris, R., Larsen, P.B.
• Funding Organization(s): United States Department of Agriculture (USDA), Research Foundation - Flanders (FWO)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.04 Å
• R-Value Free: 0.243 
• R-Value Work: 0.203 
• R-Value Observed: 0.205 

Starting Model: experimental

Literature

Amino acid changes that deregulate PHOSPHOENOLPYRUVATE CARBOXYLASE in plants

Meyer, T.J., Sheng, J., Haesaerts, S., Frausto, K., O'Leary, S., Loris, R., Larsen, P.B.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 223.15 kDa 
• Atom Count: 14,393 
• Modelled Residue Count: 1,794 
• Deposited Residue Count: 1,948 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phosphoenolpyruvate carboxylase 1	A, B	974	Arabidopsis thaliana	Mutation(s): 0  Gene Names: PPC1, p107, At1g53310, F12M16.21 EC: 4.1.1.31
UniProt
Find proteins for Q9MAH0 (Arabidopsis thaliana) Explore Q9MAH0  Go to UniProtKB:  Q9MAH0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PO4 (Subject of Investigation/LOI)	C [auth A], D [auth A], G [auth B]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K
CL	E [auth A], F [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.04 Å
• R-Value Free: 0.243 
• R-Value Work: 0.203 
• R-Value Observed: 0.205 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 127.22	α = 90
b = 158.17	β = 90
c = 141.02	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-05-31 
Deposition Author(s): Haesaerts, S., Loris, R., Larsen, P.B.

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Funding Organization	Location	Grant Number
United States Department of Agriculture (USDA)	United States	2021-67014-34888
Research Foundation - Flanders (FWO)	Belgium	G011420N

Revision History  

• Version 1.0: 2023-05-31
  Type: Initial release
  
• Version 1.1: 2024-06-19
  Changes: Data collection, Refinement description