› 3qdk

X-ray diffraction
2.31Å resolution

Structural insight on mechanism and diverse substrate selection strategy of ribulokinase

Released:
DOI: 10.2210/pdb3qdk/pdb
PDB entry 3qdk coloured by chain, front view.
PDB entry 3qdk coloured by chain, side view.
PDB entry 3qdk coloured by chain, top view.
Source organism: Alkalihalobacillus halodurans
Primary publication:
Structural insight into mechanism and diverse substrate selection strategy of L-ribulokinase.
Agarwal R, Burley SK, Swaminathan S
Proteins 80 261-8 (2012)
PMID: 22072612

Function and Biology Details

Reaction catalysed: 
ATP + L(or D)-ribulose = ADP + L(or D)-ribulose 5-phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-191824 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ribulokinase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 572 amino acids
Theoretical weight: 62.85 KDa
Source organism: Alkalihalobacillus halodurans
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9KBQ3 (Residues: 3-563; Coverage: 100%)
Gene names: BH1872, araB
Sequence domains:
Structure domains: Nucleotidyltransferase; domain 5

Ligands and Environments

1 bound ligand:
Ligand QDK 1 x QDK
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X12C, NSLS BEAMLINE X25
Spacegroup: P21
Unit cell:
a: 56.683Å b: 88.84Å c: 230.525Å
α: 90° β: 92.75° γ: 90°
R-values:
R R work R free
0.224 0.224 0.274
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

3 citation in other articles

Anxiety and serum catecholamines as predictors of survival and recurrence in hepatocellular carcinoma.
Liu et al. (2017)
2 more

4 mentions without citation

The FGGY carbohydrate kinase family: insights into the evolution of functional specificities.
Zhang et al. (2011)
3 more