Biochemical Characterization of Uracil Phosphoribosyltransferase from Mycobacterium tuberculosis

PLoS ONE

Volumn 8, Issue 2, 2013, Pages

  Villela, Anne Drumond ^a   Ducati, Rodrigo Gay ^a   Rosado, Leonardo Astolfi ^a   Bloch, Carlos Junior ^b   Prates, Maura Vianna ^b   Gonçalves, Danieli Cristina ^c   Ramos, Carlos Henrique Inacio ^c   Basso, Luiz Augusto ^a   Santos, Diogenes Santiago ^a  

^a PONTIFICAL CATHOLIC UNIVERSITY OF RIO GRANDE DO SUL   (Brazil)

^b EMBRAPA CERRADOS   (Brazil)

^c UNIVERSITY OF CAMPINAS   (Brazil)

Author keywords

[No Author keywords available]

Indexed keywords

PYROPHOSPHATE; URACIL PHOSPHORIBOSYLTRANSFERASE;

AMINO ACID SEQUENCE; AMINO TERMINAL SEQUENCE; ARTICLE; BACTERIAL GENE; CONTROLLED STUDY; ENZYME ACTIVITY; ENZYME ANALYSIS; ENZYME DEGRADATION; ENZYME KINETICS; ENZYME PURIFICATION; MASS SPECTROMETRY; MOLECULAR CLONING; MYCOBACTERIUM TUBERCULOSIS; MYCOBACTERIUM TUBERCULOSIS UPP GENE; NONHUMAN; PH; POLYACRYLAMIDE GEL ELECTROPHORESIS; POLYMERASE CHAIN REACTION; PROTEIN EXPRESSION;

ALLOSTERIC REGULATION; AMINO ACID SEQUENCE; HYDROGEN-ION CONCENTRATION; KINETICS; MOLECULAR SEQUENCE DATA; MYCOBACTERIUM TUBERCULOSIS; NUCLEOTIDES; PENTOSYLTRANSFERASES; POLYMERASE CHAIN REACTION; SEQUENCE ANALYSIS; SUBSTRATE SPECIFICITY;

EID: 84873720437     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0056445     Document Type: Article

References (55)

1. World Health Organization (2011) Global Tuberculosis Control: WHO report 2011.
2. Jain A, Mondal R, (2008) Extensively drug-resistant tuberculosis: current challenges and threats. FEMS Immunol Med Microbiol 53: 145-50.
3. Velayati AA, Farnia P, Masjedi MR, Ibrahim TA, Tabarsi P, et al. (2009) Totally drug-resistant tuberculosis strains: evidence of adaptation at the cellular level. Eur Respir J 34: 1202-1203.
4. Ducati RG, Ruffino-Netto A, Basso LA, Santos DS, (2006) The resumption of consumption - a review on tuberculosis. Mem Inst Oswaldo Cruz 101: 697-714.
5. Pieters J, (2008) Mycobacterium tuberculosis and the macrophage: maintaining a balance. Cell Host Microbe 3: 399-407.
6. Stewart GR, Robertson BD, Young DB, (2003) Tuberculosis: a problem with persistence. Nat Rev Microbiol 1: 97-105.
7. Cole ST, Brosch R, Parkhill J, Garnier T, Churcher C, et al. (1998) Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence. Nature 393: 537-544.
8. Villela AD, Sánchez-Quitian ZA, Ducati RG, Santos DS, Basso LA, (2011) Pyrimidine salvage pathway in Mycobacterium tuberculosis. Curr Med Chem 18: 1286-1298.
9. Ducati RG, Breda A, Basso LA, Santos DS, (2011) Purine Salvage Pathway in Mycobacterium tuberculosis. Curr Med Chem 18: 1258-1275.
10. Ducati RG, Souto AA, Caceres RA, de Azevedo Jr WF, Basso LA, et al. (2010) Purine Nucleoside Phosphorylase as a Molecular Target to Develop Active Compounds Against Mycobacterium tuberculosis. Int Rev Biophys Chem 1: 34-40.
11. Ducati RG, Basso LA, Santos DS, de Azevedo WF Jr, (2010) Crystallographic and docking studies of purine nucleoside phosphorylase from Mycobacterium tuberculosis. Bioorg Med Chem 18: 4769-4774.
12. Ducati RG, Santos DS, Basso LA, (2009) Substrate specificity and kinetic mechanism of purine nucleoside phosphorylase from Mycobacterium tuberculosis. Arch Biochem Biophys 486: 155-164.
13. Ducati RG, Basso LA, Santos DS, (2007) Mycobacterial shikimate pathway enzymes as targets for drug design. Curr Drug Targets 8: 423-435.
14. Kim S, Park DH, Kim TH, Hwang M, Shim J, (2009) Functional analysis of pyrimidine biosynthesis enzymes using the anticancer drug 5-fluorouracil in Caenorhabditis elegans. FEBS J 276: 4715-4726.
15. Moffatt BA, Ashihara H, (2002) Purine and pyrimidine nucleotide synthesis and metabolism. Arabidopsis Book 1: e0018.
16. Kadziola A, Neuhard J, Larsen S, (2002) Structure of product-bound Bacillus caldolyticus uracil phosphoribosyltransferase confirms ordered sequential substrate binding. Acta Crystallogr D Biol Crystallogr 58: 936-945.
17. Kantardjieff KA, Vasquez C, Castro P, Warfel NM, Rho BS, et al. (2005) Structure of pyrR (Rv1379) from Mycobacterium tuberculosis: a persistence gene and protein drug target. Acta Crystallogr D Biol Crystallogr 61: 355-364.
18. Li J, Huang S, Chen J, Yang Z, Fei X, et al. (2007) Identification and characterization of human uracil phosphoribosyltransferase (UPRTase). J Hum Genet 52: 415-422.
19. Renck D, Ducati RG, Palma MS, Santos DS, Basso LA, (2010) The kinetic mechanism of human uridine phosphorylase 1: Towards the development of enzyme inhibitors for cancer chemotherapy. Arch Biochem Biophys 497: 35-42.
20. Suzuki NN, Koizumi K, Fukushima M, Matsuda A, Inagaki F, (2004) Structural basis for the specificity, catalysis, and regulation of human uridine-cytidine kinase. Structure 12: 751-764.
21. Yablonski MJ, Pasek DA, Han BD, Jones ME, Traut TW, (1996) Intrinsic activity and stability of bifunctional human UMP synthase and its two separate catalytic domains, orotate phosphoribosyltransferase and orotidine-5′-phosphate decarboxylase. J Biol Chem 271: 10704-10708.
22. Ichikawa W, (2006) Prediction of clinical outcome of fluoropyrimidine-based chemotherapy for gastric cancer patients, in terms of the 5-fluorouracil metabolic pathway. Gastric Cancer 9: 145-155.
23. Sassetti CM, Rubin EJ, (2003) Genetic requirements for mycobacterial survival during infection. Proc Natl Acad Sci U S A 100: 12989-12994.
24. Kelley KC, Huestis KJ, Austen DA, Sanderson CT, Donoghue MA, et al. (1995) Regulation of sCD4-183 gene expression from phage-T7-based vectors in Escherichia coli. Gene 156: 33-36.
25. Grossman TH, Kawasaki ES, Punreddy SR, Osburne MS, (1998) Spontaneous cAMP-dependent derepression of gene expression in stationary phase plays a role in recombinant expression instability. Gene 209: 95-103.
26. Sánchez-Quitian ZA, Schneider CZ, Ducati RG, de Azevedo WF Jr, Bloch C Jr, et al. (2010) Structural and functional analyses of Mycobacterium tuberculosis Rv3315c-encoded metal-dependent homotetrameric cytidine deaminase. J Struct Biol 169: 413-423.
27. Rostirolla DC, Breda A, Rosado LA, Palma MS, Basso LA, et al. (2011) UMP kinase from Mycobacterium tuberculosis: Mode of action and allosteric interactions, and their likely role in pyrimidine metabolism regulation. Arch Biochem Biophys 505: 202-212.
28. Nunes JE, Ducati RG, Breda A, Rosado LA, de Souza BM, et al. (2011) Molecular, kinetic, thermodynamic, and structural analyses of Mycobacterium tuberculosis hisD-encoded metal-dependent dimeric histidinol dehydrogenase (EC 1.1.1.23). Arch Biochem Biophys 512: 143-153.
29. Martinelli LK, Ducati RG, Rosado LA, Breda A, Selbach BP, et al. (2011) Recombinant Escherichia coli GMP reductase: kinetic, catalytic and chemical mechanisms, and thermodynamics of enzyme-ligand binary complex formation. Mol Biosyst 7: 1289-1305.
30. de Mendonça JD, Adachi O, Rosado LA, Ducati RG, Santos DS, et al. (2011) Kinetic mechanism determination and analysis of metal requirement of dehydroquinate synthase from Mycobacterium tuberculosis H37Rv: an essential step in the function-based rational design of anti-TB drugs. Mol Biosyst 7: 119-128.
31. Schumacher MA, Bashor CJ, Song MH, Otsu K, Zhu S, et al. (2002) The structural mechanism of GTP stabilized oligomerization and catalytic activation of the Toxoplasma gondii uracil phosphoribosyltransferase. Proc Natl Acad Sci U S A 99: 78-83.
32. Jensen KF, Arent S, Larsen S, Schack L, (2005) Allosteric properties of the GTP activated and CTP inhibited uracil phosphoribosyltransferase from the thermoacidophilic archaeon Sulfolobus solfataricus. FEBS J 272: 1440-1453.
33. Linde L, Jensen KF, (1996) Uracil phosphoribosyltransferase from the extreme thermoacidophilic archaebacterium Sulfolobus shibatae is an allosteric enzyme, activated by GTP and inhibited by CTP. Biochim Biophys Acta 1296: 16-22.
34. Dai YP, Lee CS, O'Sullivan WJ, (1995) Properties of uracil phosphoribosyltransferase from Giardia intestinalis. Int J Parasitol 25: 207-214.
35. Jensen HK, Mikkelsen N, Neuhard J, (1997) Recombinant uracil phosphoribosyltransferase from the thermophile Bacillus caldolyticus: expression, purification, and partial characterization. Protein Expr Purif 10: 356-364.
36. Rasmussen UB, Mygind B, Nygaard P, (1986) Purification and some properties of uracil phosphoribosyltransferase from Escherichia coli K12. Biochim Biophys Acta 881: 268-275.
37. Jensen KF, Mygind B, (1996) Different oligomeric states are involved in the allosteric behavior of uracil phosphoribosyltransferase from Escherichia coli. Eur J Biochem 240: 637-645.
38. De Brabandere H, Forsgard N, Israelsson L, Petterson J, Rydin E, et al. (2008) Screening for organic phosphorus compounds in aquatic sediments by liquid chromatography coupled to ICP-AES and ESI-MS/MS. Anal Chem 80: 6689-6697.
39. Henri V, Michaelis L, Menten ML, (1913) Biochem Z 49: 333-369.
40. Christoffersen S, Kadziola A, Johansson E, Rasmussen M, Willemoës M, et al. (2009) Structural and kinetic studies of the allosteric transition in Sulfolobus solfataricus uracil phosphoribosyltransferase: Permanent activation by engineering of the C-terminus. J Mol Biol 393: 464-477.
41. Segel IH (1975) Enzyme kinetics, behavior and analysis of rapid equilibrium and steady-state enzyme systems. New York: John Wiley and Sons, Inc.
42. Copeland RA (2005) Evaluation of enzyme inhibitors in drug discovery, a guide for medicinal chemists and pharmacologists. New Jersey: John Wiley and Sons, Inc.
43. Ladbury JE, Doyle ML (2004) Biocalorimetry II. London: Wiley.
44. Brown A, (2009) Analysis of cooperativity by isothermal titration calorimetry. Int J Mol Sci 10: 3457-3477.
45. Lundegaard C, Jensen KF, (1999) Kinetic mechanism of uracil phosphoribosyltransferase from Escherichia coli and catalytic importance of the conserved proline in the PRPP binding site. Biochemistry 38: 3327-3334.
46. Schumacher MA, Carter D, Scott DM, Roos DS, Ullman B, et al. (1998) Crystal structures of Toxoplasma gondii uracil phosphoribosyltransferase reveal the atomic basis of pyrimidine discrimination and prodrug binding. EMBO J 17: 3219-3232.
47. Arent S, Harris P, Jensen KF, Larsen S, (2005) Allosteric regulation and communication between subunits in uracil phosphoribosyltransferase from Sulfolobus solfataricus. Biochemistry 44: 883-892.
48. Laemmli UK, (1970) Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature 227: 680-685.
49. Bradford MM, (1976) A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal Biochem 72: 248-254.
50. Brand GD, Krause FC, Silva LP, Leite JR, Melo JA, et al. (2006) Bradykinin-related peptides from Phyllomedusa hypochondrialis. Peptides 27: 2137-2146.
51. Borges JC, Ramos CH, (2011) Analysis of molecular targets of Mycobacterium tuberculosis by analytical ultracentrifugation. Curr Med Chem 18: 1276-1285.
52. Natalini P, Ruggieri S, Santarelli I, Vita A, Magni G, (1979) Baker's yeast UMP:pyrophosphate phosphoribosyltransferase. Purification, enzymatic and kinetic properties. J Biol Chem 254: 1558-1563.
53. Cook PF, Cleland WW (2007) Enzyme kinetics and mechanism. New York: Garland Science Publishing.
54. Sambandamurthy VK, Jacobs WR Jr, (2005) Live attenuated mutants of Mycobacterium tuberculosis as candidate vaccines against tuberculosis. Microbes Infect 7: 955-961.
55. Kamath AT, Fruth U, Brennan MJ, Dobbelaer R, Hubrechts P, et al. (2005) New live mycobacterial vaccines: the Geneva consensus on essential steps towards clinical development. Vaccine 23: 3753-3761.