Expression and characterization of the ATP-binding domain of a malarial Plasmodium vivax gene homologous to the B-subunit of the bacterial topoisomerase DNA gyrase.

We have previously reported the presence of a DNA gyrase-like topoisomerase activity associated with the 35kb apicoplast DNA in the malarial parasite Plasmodium falciparum [Weissig V, Vetro-Widenhouse TS, Rowe TC. Topoisomerase II inhibitors induce cleavage of nuclear and 35kb plastid DNAs in the malarial parasite Plasmodium falciparum. DNA Cell Biol 1997;16:1483]. Sequences encoding polypeptides homologous to both the A and B subunits of bacterial DNA gyrase have been identified in the genome sequence of P. falciparum among data produced by the Malaria Genome Consortium and the University of Florida Malaria Gene Sequence Tag Project. Based on these findings, we have cloned and expressed a region of the Plasmodium vivax GyrB gene encoding a 43kDa polypeptide homologous to the ATP-binding domain of Escherichia coli DNA gyrase. The 43kDa PvGyrB polypeptide was found to have intrinsic ATPase activity with a K(m) of 0.27mM and a k(cat) of 0.051s(-1). The PvGyrB ATPase was also sensitive to the bacterial DNA gyrase inhibitor coumermycin. The implications of these findings are discussed.

[1]  D. Roos,et al.  Nuclear-encoded proteins target to the plastid in Toxoplasma gondii and Plasmodium falciparum. , 1998, Proceedings of the National Academy of Sciences of the United States of America.

[2]  M. Farrar,et al.  Coumermycin-induced dimerization of GyrB-containing fusion proteins. , 2000, Methods in Enzymology.

[3]  J. Holden,et al.  DNA topoisomerases as anticancer drug targets: from the laboratory to the clinic. , 2001, Current medicinal chemistry. Anti-cancer agents.

[4]  E. Pennisi Malarial Genome Comes Into View , 1999, Science.

[5]  A. Cornish-Bowden Fundamentals of Enzyme Kinetics , 1979 .

[6]  V. Weissig,et al.  Topoisomerase II inhibitors induce cleavage of nuclear and 35-kb plastid DNAs in the malarial parasite Plasmodium falciparum. , 1997, DNA and cell biology.

[7]  J. Lindsley Use of a real-time, coupled assay to measure the ATPase activity of DNA topoisomerase II. , 2001, Methods in molecular biology.

[8]  T. Kuroiwa,et al.  DNA gyrase involvement in chloroplast-nucleoid division in Cyanidioschyzon merolae. , 1997, European journal of cell biology.

[9]  G. Cannon,et al.  Chloroplast DNA synthesis during the cell cycle in cultured cells of Nicotiana tabacum: inhibition by nalidixic acid and hydroxyurea. , 1985, Archives of biochemistry and biophysics.

[10]  J Zuegge,et al.  Deciphering apicoplast targeting signals--feature extraction from nuclear-encoded precursors of Plasmodium falciparum apicoplast proteins. , 2001, Gene.

[11]  T. Shapiro,et al.  Drug-promoted cleavage of kinetoplast DNA minicircles. Evidence for type II topoisomerase activity in trypanosome mitochondria. , 1989, The Journal of biological chemistry.

[12]  M. Gellert,et al.  Novobiocin and coumermycin inhibit DNA supercoiling catalyzed by DNA gyrase. , 1976, Proceedings of the National Academy of Sciences of the United States of America.

[13]  L. Liu,et al.  Tumor cell death induced by topoisomerase-targeting drugs. , 2001, Annual review of pharmacology and toxicology.

[14]  D. Kroll,et al.  Phosphorylation of DNA topoisomerase II in a human tumor cell line. , 1991, The Journal of biological chemistry.

[15]  James K. Tamura,et al.  Mutations in the B Subunit of Escherichia coli DNA Gyrase That Affect ATP-dependent Reactions (*) , 1996, The Journal of Biological Chemistry.

[16]  A. Maxwell,et al.  Identifying the catalytic residue of the ATPase reaction of DNA gyrase. , 1993, Proceedings of the National Academy of Sciences of the United States of America.

[17]  Patrick Forterre,et al.  Phylogenomics of type II DNA topoisomerases , 2003, BioEssays : news and reviews in molecular, cellular and developmental biology.

[18]  L. Aravind,et al.  Plasmodium Biology Genomic Gleanings , 2003, Cell.

[19]  J. Champoux DNA topoisomerases: structure, function, and mechanism. , 2001, Annual review of biochemistry.

[20]  A. Maxwell,et al.  The 43-kilodalton N-terminal fragment of the DNA gyrase B protein hydrolyzes ATP and binds coumarin drugs. , 1993, Biochemistry.

[21]  Debashish Bhattacharya,et al.  Photosynthetic eukaryotes unite: endosymbiosis connects the dots. , 2004, BioEssays : news and reviews in molecular, cellular and developmental biology.

[22]  D. Wigley,et al.  Crystal structure of an N-terminal fragment of the DNA gyrase B protein , 1991, Nature.

[23]  S. Cheesman The topoisomerases of protozoan parasites. , 2000, Parasitology today.

[24]  W. Staudenbauer,et al.  DNA gyrase: affinity chromatography on novobiocin-Sepharose and catalytic properties. , 1981, Nucleic acids research.

[25]  P. Brown,et al.  Energy coupling in DNA gyrase and the mechanism of action of novobiocin. , 1978, Proceedings of the National Academy of Sciences of the United States of America.

[26]  K. Marians,et al.  Escherichia coli topoisomerase IV. Purification, characterization, subunit structure, and subunit interactions. , 1993, The Journal of biological chemistry.

[27]  Brian J. Kilbey,et al.  The gene encoding topoisomerase II from Plasmodium falciparum , 1994, Nucleic Acids Res..

[28]  C. V. Smith,et al.  Crystallization of inhibitor complexes of an N-terminal 24 kDa fragment of the DNA gyrase B protein. , 1994, Journal of molecular biology.

[29]  A. Breeze,et al.  The high‐resolution crystal structure of a 24‐kDa gyrase B fragment from E. coli complexed with one of the most potent coumarin inhibitors, clorobiocin , 1997, Proteins.

[30]  M. Strath,et al.  The plastid DNA of the malaria parasite Plasmodium falciparum is replicated by two mechanisms , 2002, Molecular microbiology.

[31]  K. Drlica,et al.  Fluoroquinolones: action and resistance. , 2003, Current topics in medicinal chemistry.

[32]  A. Maxwell,et al.  The DNA Gyrase-Quinolone Complex , 1998, The Journal of Biological Chemistry.

[33]  P. Charifson,et al.  Active-Site Residues of Escherichia coli DNA Gyrase Required in Coupling ATP Hydrolysis to DNA Supercoiling and Amino Acid Substitutions Leading to Novobiocin Resistance , 2003, Antimicrobial Agents and Chemotherapy.

[34]  Patricia J. Johnson,et al.  Ancient Invasions: From Endosymbionts to Organelles , 2004, Science.

[35]  Christopher J. Tonkin,et al.  Dissecting Apicoplast Targeting in the Malaria Parasite Plasmodium falciparum , 2003, Science.

[36]  C. D. Hardy,et al.  Alteration of Escherichia coli Topoisomerase IV to Novobiocin Resistance , 2003, Antimicrobial Agents and Chemotherapy.

[37]  Christopher J. Tonkin,et al.  Tropical infectious diseases: Metabolic maps and functions of the Plasmodium falciparum apicoplast , 2004, Nature Reviews Microbiology.

[38]  Anthony Maxwell,et al.  Arabidopsis thaliana DNA gyrase is targeted to chloroplasts and mitochondria. , 2004, Proceedings of the National Academy of Sciences of the United States of America.

[39]  N. Cozzarelli,et al.  The intrinsic ATPase of DNA gyrase. , 1980, The Journal of biological chemistry.

[40]  P. Charifson,et al.  Crystal Structures of Escherichia coli Topoisomerase IV ParE Subunit (24 and 43 Kilodaltons): a Single Residue Dictates Differences in Novobiocin Potency against Topoisomerase IV and DNA Gyrase , 2004, Antimicrobial Agents and Chemotherapy.

[41]  C V Smith,et al.  The nature of inhibition of DNA gyrase by the coumarins and the cyclothialidines revealed by X‐ray crystallography. , 1996, The EMBO journal.

[42]  Dame,et al.  The plasmodium vivax and P. berghei gene sequence tag projects , 2000, Parasitology today.

[43]  J. Krajčovič,et al.  Quinolones and coumarins eliminate chloroplasts from Euglena gracilis , 1989, Antimicrobial Agents and Chemotherapy.

[44]  Fumiko Ohta,et al.  Genome sequence of the ultrasmall unicellular red alga Cyanidioschyzon merolae 10D , 2004, Nature.

[45]  A. Nicolas,et al.  An atypical topoisomerase II from archaea with implications for meiotic recombination , 1997, Nature.

[46]  JAMES C. Wang,et al.  Cellular roles of DNA topoisomerases: a molecular perspective , 2002, Nature Reviews Molecular Cell Biology.

[47]  T. Shapiro,et al.  Selective cleavage of kinetoplast DNA minicircles promoted by antitrypanosomal drugs. , 1990, Proceedings of the National Academy of Sciences of the United States of America.

[48]  N. Osheroff,et al.  Stabilization of eukaryotic topoisomerase II-DNA cleavage complexes. , 2003, Current topics in medicinal chemistry.

[49]  A. Maxwell DNA gyrase as a drug target. , 1999, Biochemical Society Transactions.

[50]  R. Wilson,et al.  Progress with parasite plastids. , 2002, Journal of molecular biology.

[51]  T. Hsieh,et al.  ATPase Domain of Eukaryotic DNA Topoisomerase II , 2002, The Journal of Biological Chemistry.

[52]  G. Mosig,et al.  Roles of novobiocin-sensitive topoisomerases in chloroplast DNA replication in Chlamydomonas reinhardtii. , 1993, Nucleic acids research.

[53]  J. Nitiss,et al.  DNA Topoisomerase II as a Target for Cancer Chemotherapy , 2002, Cancer investigation.

[54]  M. Gellert,et al.  The DNA dependence of the ATPase activity of DNA gyrase. , 1984, The Journal of biological chemistry.

[55]  H. Hiasa,et al.  DNA gyrase and topoisomerase IV: biochemical activities, physiological roles during chromosome replication, and drug sensitivities. , 1998, Biochimica et biophysica acta.

[56]  J. Venter,et al.  The Malaria Genome Sequencing Project , 1998, Expert Reviews in Molecular Medicine.

[57]  G. Mosig,et al.  An ATP-dependent supercoiling topoisomerase of Chlamydomonas reinhardtii affects accumulation of specific chloroplast transcripts. , 1985, Nucleic acids research.

[58]  H. Lyman SPECIFIC INHIBITION OF CHLOROPLAST REPLICATION IN EUGLENA GRACILIS BY NALIDIXIC ACID , 1967, The Journal of cell biology.

[59]  David S. Roos,et al.  A plastid organelle as a drug target in apicomplexan parasites , 1997, Nature.

[60]  Anthony Maxwell,et al.  The ATP-binding site of type II topoisomerases as a target for antibacterial drugs. , 2003, Current topics in medicinal chemistry.

[61]  J. Crouzet,et al.  Differential behaviors of Staphylococcus aureus and Escherichia coli type II DNA topoisomerases , 1996, Antimicrobial agents and chemotherapy.