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Crystal structure of a trimeric form of dephosphocoenzyme A kinase from Escherichia coli

¹ Department of Biochemistry, McGill University, Montréal, Québec H3G 1Y6, Canada
² Montréal Joint Centre for Structural Biology, Montréal, Québec, Canada
³ Biotechnology Research Institute, National Research Council, Montréal, Québec H4P 2R2, Canada
⁴ Los Alamos National Laboratory, Los Alamos, New Mexico 87545, USA

Reprint requests to: Mirek Cygler, Biotechnology Research Institute, NRC, 6100 Royalmount Ave., Montréal, Québec H4P 2R2, Canada; e-mail: mirek{at}bri.nrc.ca; fax: (514) 496-5143.

Coenzyme A (CoA) is an essential cofactor used in a wide variety of biochemical pathways. The final step in the biosynthesis of CoA is catalyzed by dephosphocoenzyme A kinase (DPCK, E.C. 2.7.1.24). Here we report the crystal structure of DPCK from Escherichia coli at 1.8 Å resolution. This enzyme forms a tightly packed trimer in its crystal state, in contrast to its observed monomeric structure in solution and to the monomeric, homologous DPCK structure from Haemophilus influenzae. We have confirmed the existence of the trimeric form of the enzyme in solution using gel filtration chromatography measurements. Dephospho-CoA kinase is structurally similar to many nucleoside kinases and other P-loop-containing nucleotide triphosphate hydrolases, despite having negligible sequence similarity to these enzymes. Each monomer consists of five parallel ß-strands flanked by -helices, with an ATP-binding site formed by a P-loop motif. Orthologs of the E. coli DPCK sequence exist in a wide range of organisms, including humans. Multiple alignment of orthologous DPCK sequences reveals a set of highly conserved residues in the vicinity of the nucleotide/CoA binding site.

Keywords: Crystal structure; dephosphocoenzyme A kinase; trimer; nucleotide triphosphate hydrolase

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