› 6kex

X-ray diffraction
2.5Å resolution

Crystal structure of reduced phosphoribulokinase from Arabidopsis thaliana

Released:
DOI: 10.2210/pdb6kex/pdb
PDB entry 6kex coloured by chain, front view.
PDB entry 6kex coloured by chain, side view.
PDB entry 6kex coloured by chain, top view.
Source organism: Arabidopsis thaliana
Primary publication:
Photosynthetic Phosphoribulokinase Structures: Enzymatic Mechanisms and the Redox Regulation of the Calvin-Benson-Bassham Cycle.
Yu A, Xie Y, Pan X, Zhang H, Cao P, Su X, Chang W, Li M
Plant Cell 32 1556-1573 (2020)
PMID: 32102842

Function and Biology Details

Reaction catalysed: 
ATP + D-ribulose 5-phosphate = ADP + D-ribulose 1,5-bisphosphate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-150561 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Phosphoribulokinase, chloroplastic Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 359 amino acids
Theoretical weight: 40.5 KDa
Source organism: Arabidopsis thaliana
Expression system: Escherichia coli
UniProt:
  • Canonical: P25697 (Residues: 47-395; Coverage: 88%)
Gene names: At1g32060, T12O21.4
Sequence domains: Phosphoribulokinase / Uridine kinase family

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Spacegroup: P1
Unit cell:
a: 49.835Å b: 80.359Å c: 103.087Å
α: 70.1° β: 82.26° γ: 89.85°
R-values:
R R work R free
0.211 0.211 0.256
Expression system: Escherichia coli

Quick links

Citations

6 review citations

From Protein Film Electrochemistry to Nanoconfined Enzyme Cascades and the Electrochemical Leaf.
Armstrong et al. (2023)
5 more

1 mention without citation

Ribulose-1,5-bisphosphate regeneration in the Calvin-Benson-Bassham cycle: Focus on the last three enzymatic steps that allow the formation of Rubisco substrate.
Meloni et al. (2023)