4FXP

Crystal structure of adenosine 5'-phosphosulfate kinase from Arabidopsis thaliana in Complex with Sulfate and APS

Summary for 4FXP

• Entry DOI: 10.2210/pdb4fxp/pdb
• Related: 3UIE
• Descriptor: Adenylyl-sulfate kinase 1, chloroplastic, ADENOSINE-5'-PHOSPHOSULFATE, SULFATE ION, ... (4 entities in total)
• Functional Keywords: rossmann fold, nucleotide kinase, chloroplast, transferase
• Biological source: Arabidopsis thaliana (mouse-ear cress,thale-cress)
• Cellular location: Plastid, chloroplast: Q43295
• Total number of polymer chains: 3
• Total formula weight: 67882.99

Authors

Ravilious, G.E.,Jez, J.M. (deposition date: 2012-07-03, release date: 2012-07-25, Last modification date: 2024-10-09)

Primary citation

Ravilious, G.E.,Jez, J.M.
Nucleotide binding site communication in Arabidopsis thaliana adenosine 5'-phosphosulfate kinase.
J.Biol.Chem., 287:30385-30394, 2012

PubMed Abstract: Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the ATP-dependent synthesis of adenosine 3'-phosphate 5'-phosphosulfate (PAPS), which is an essential metabolite for sulfur assimilation in prokaryotes and eukaryotes. Using APSK from Arabidopsis thaliana, we examine the energetics of nucleotide binary and ternary complex formation and probe active site features that coordinate the order of ligand addition. Calorimetric analysis shows that binding can occur first at either nucleotide site, but that initial interaction at the ATP/ADP site was favored and enhanced affinity for APS in the second site by 50-fold. The thermodynamics of the two possible binding models (i.e. ATP first versus APS first) differs and implies that active site structural changes guide the order of nucleotide addition. The ligand binding analysis also supports an earlier suggestion of intermolecular interactions in the dimeric APSK structure. Crystallographic, site-directed mutagenesis, and energetic analyses of oxyanion recognition by the P-loop in the ATP/ADP binding site and the role of Asp(136), which bridges the ATP/ADP and APS/PAPS binding sites, suggest how the ordered nucleotide binding sequence and structural changes are dynamically coordinated for catalysis.

PubMed: 22810229
DOI: 10.1074/jbc.M112.387001

Experimental method

X-RAY DIFFRACTION (1.954 Å)