Potential drug targets in Mycobacterium tuberculosis through metabolic pathway analysis

Computational Biology and Chemistry

Volumn 29, Issue 5, 2005, Pages 368-378

  Anishetty, Sharmila ^a   Pulimi, Mrudula ^a   Pennathur, Gautam ^a  

^a ANNA UNIVERSITY   (India)

Author keywords

Insilico drug targets; KEGG; Metabolic pathways; MurD ligase; Mycobacterium tuberculosis

Indexed keywords

BIOCHEMISTRY; BIOSYNTHESIS; DIAGNOSIS; DRUG PRODUCTS; METABOLISM; MOLECULAR STRUCTURE; PATHOLOGY;

INSILICO DRUG TARGETS; KEGG; MULTIDRUG ASSISTANT; MURD LIGASE; MYCOBACTERIUM TUBERCULOSIS;

BACTERIA;

HOMO SAPIENS; MYCOBACTERIUM TUBERCULOSIS;

EID: 27644588079     PISSN: 14769271     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.compbiolchem.2005.07.001     Document Type: Article

References (41)

1. S.F. Altschul, L.M. Thomas, A.S. Alejandro, Z. Jinghui, Z. Zheng, M. Webb, and J.L. David Gapped BLAST and PSI BLAST: a new generation of protein database search programs Nucleic Acids Res. 25 17 1997 3389 3402
2. J.A. Bertrand, E. Fanchon, L. Martin, L. Chantalat, G. Auger, D. Blanot, J. Van Heijenoort, and O. Dideberg Open' structures of Murd: domain movements and structural similarities with folylpolyglutamate synthetase J. Mol. Biol. 301 5 2000 1257 1266
3. V. Braun, K. Hantke, and W. Koster Bacterial iron transport: mechanisms genetics, and regulation Met. Ions Biol. Syst. 35 1998 67 145
4. B.R. Byers, and J.E. Arceneaux Microbial iron transport: iron acquisition by pathogenic microorganisms Met. Ions Biol. Syst. 35 1998 37 66
5. W. Celia, L. Goulding, P. Jeanne, A. Daniel, R.S. Michael, C. Duilio, I.A. Marcin, C. Sum, P. Angineh, W. Shui-Shu, W. Yim, C. Vicent, S.G. Harindarpal, and E. David Structural genomics of Mycobacterium tuberculosis: a preliminary report of progress at UCLA Biophys. Chem. 105 2003 361 370
6. E.B. Clifton III, A.S. Richard, E.S. Andrea, and E.L. Richard Use of genomics and combinatorial chemistry in the development of new antimycobacterial drugs Biochem. Pharmacol. 59 2000 221 231
7. S.T. Cole, R. Brosch, J. Parkhill, D.C. Churcher Harris, S.V. Gordon, K. Eiglmeier, S. Gas, C.E. Barry III, F. Tekaia, K. Badcock, D. Basham, D. Brown, T. Chillingworth, R. Connor, R. Davies, K. Devlin, T. Feltwell, S. Gentles, N. Hamlin, S. Holroyd, T. Hornsby, K. Jagels, and B.G. Barrell Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence Nature 393 1998 537 544
8. C.C. Dean, S. Mahapatra, and P.J. Brennan Biosynthesis of the arabinogalactan-peptidoglycan complex of Mycobacterium tuberculosis Glycobiology 11 9 2001 107R 118R
9. L. Falquet, M. Pagni, P. Bucher, N. Hulo, C.J. Sigrist, K. Hofmann, and A. Bairoch The PROSITE database, its status in 2002 Nucleic Acids Res. 30 1 2002 235 238
10. J.D.V. James, K. Rutter, G. Benjamin, Schroeder, S. Hua, Z. YaQi, and E.B. Clifton III The salicylate derived mycobactin siderophores of Mycobacterium tuberculosis are essential for growth in macrophages Proc. Natl. Acad. Sci. 97 3 2000 1252 1257
11. A.B. Jay, A. Genevie've, F. Eric, M. Lydie, B. Didier, H. Jean Van, and D. Otto Crystal structure of UDP-N-acetylmuramoyl-l-alanine:d-glutamate ligase from Escherichia coli EMBO J. 16 12 1997 3416 3425
12. M. Kanehisa, S. Goto, S. Kawashima, and A. Nakaya The KEGG databases at Genome Net Nucleic Acids Res. 30 1 2002 42 46
13. S. Khasnobis, V.E. Escuyer, and D. Chatterjee Emerging therapeutic targets in tuberculosis: post-genomic era Expert Opin. Ther. Targets 6 1 2002 21 40
14. P.E. Kolattukudy, N.D. Fernandes, A.K. Azad, A.M. Fitzmaurice, and T.D. Sirakova Biochemistry and molecular genetics of cell-wall lipid biosynthesis in mycobacteria Mol. Microbiol. 24 2 1997 263 270
15. G.J. Kontoghiorghes, and E.D. Weinberg Iron: mammalian defense systems, mechanisms of disease, and chelation therapy approaches Blood Rev. 9 1 1995 33 45
16. R.A. Laskowski, M.W. MacArthur, D.S. Moss, and J.M. Thornton PROCHECK: a program to check the stereochemical quality of protein structures J. Appl. Cryst. 26 1993 283 291
17. E. Lindahl, B. Hess, and D. Van der Spoel GROMACS 3.0: a package for molecular simulation and trajectory analysis J. Mol. Model. 7 2001 306 317
18. E.N.Q. Luis, S. Jason, A.K. Thomas, H.W. Paul, and T.W. Christopher Identification of a Mycobacterium tuberculosis gene cluster encoding the biosynthetic enzymes for assembly of the virulence conferring siderophore mycobactin Chem. Biol. 5 11 1998 631 645
19. Y. Ma, R.J. Stern, M.S. Scherman, V.D. Vissa, W. Yan, V.C. Jones, F. Zhang, S.G. Franzblau, W.H. Lewis, and M.R. McNeil Drug targeting Mycobacterium tuberculosis cell wall synthesis: genetics of dTDP-rhamnose synthetic enzymes and development of a microtiter plate based screen for inhibitors of conversion of dTDP-glucose to dTDP-rhamnose Antimicrob. Agents Chemother. 45 2001 1407 1416
20. Y.G. Michael, and V.K. Eugene Searching for drug targets in microbial genomes Curr. Opin. Biotechnol. 10 6 1999 571 578
21. K. Mikusova, R.A. Slayden, G.S. Besra, and P.J. Brennan Biogenesis of the mycobacterial cell wall and the site of action of ethambutol Antimicrob. Agents Chemother. 39 1995 2484 2489
22. K. Mikusova, M. Mikus, G.S. Besra, I. Hannock, and P.J. Brennan Chemistry of the bacterial cell wall W.N. Rom S.M. Garay Tuberculosis 1996 Little Brown and Company Boston 171 185
23. N.J. Mulder, R. Apweiler, T.K. Attwood, A. Bairoch, A. Bateman, D. Binns, M. Biswas, P. Bradley, P. Bork, P. Bucher, R.R. Copley, E. Courcelle, U. Das, R. Durbin, L. Falquet, W. Fleischmann, S. Griffiths-Jones, D. Haft, N. Harte, N. Hulo, D. Kahn, A. Kanapin, M. Krestyaninova, R. Lopez, I. Letunic, D. Lonsdale, V. Silventoinen, S.E. Orchard, M. Pagni, D. Peyruc, C.P. Ponting, J.D. Selengut, F. Servant, C.J. Sigrist, R. Vaughan, and E.M. Zdobnov The InterPro Database, 2003 brings increased coverage and new functions Nucleic Acids Res. 31 1 2003 315 318
24. H.T. Rogers, H.R. Perkins, and J.B. Ward Microbial Cell Walls and Membranes 1980 Chapman & Hall Ltd. London, UK pp. 239-297
25. M. Saraste, P.R. Sibbald, and A. Wittinghofer The P-loop: a common motif in ATP and GTP binding proteins Trends Biochem. Sci. 5 11 1990 430 434
26. K.H. Schleifer, and O. Kandler Peptidoglycan types of the bacterial cell walls and their taxonomic implications Bacteriol. Rev. 36 14 1972 407 477
27. E.L. Sonnhammer, S.R. Eddy, E. Birney, A. Bateman, and R. Durbin Pfam: multiple sequence alignments and HMM-profiles of protein domains Nucleic Acids Res. 26 1 1998 320 322
28. J.P. Steven New (and not so new) antibacterial targets - from where and when will the novel drugs come Curr. Opin. Pharmacol. 2 2002 513 522
29. U. Strych, R.L. Penland, M. Jimenez, K.L. Krause, and M.J. Benedik Characterization of the alanine racemases from two mycobacteria FEMS Microbiol. Lett. 196 2 2001 93 98
30. R.L. Tatusov, N.D. Fedorova, J.D. Jackson, A.R. Jacobs, B. Kiryutin, E.V. Koonin, D.M. Krylov, R. Mazumder, S.L. Mekhedov, A.N. Nikolskaya, B.S. Rao, S. Smirnov, A.V. Sverdlov, S. Vasudevan, Y.I. Wolf, J.J. Yin, and D.A. Natale The COG database: an updated version includes eukaryotes BMC Bioinform. 4 1 2003 41
31. The Genome International Consortium Initial sequencing and analysis of the human genome Nature 409 2001 860 921
32. J.D. Thompson, T.J. Gibson, F. Plewniak, F. Jeanmougin, and D.G. Higgins The ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools Nucleic Acids Res. 24 1997 4876 4882
33. J. Van Heijenoort Biosynthesis of the peptidoglycan unit J.M. Ghuysen R. Hakenbeck Bacterial Cell Wall 1994 Elsevier Science B.V. Amsterdam 39 54
34. G. Vriend WHAT IF: a molecular modeling and drug design program J. Mol. Graphics 8 1 1990 52 56
35. J.E. Walker, M. Saraste, M.J. Runswick, and N.J. Gay Distantly related sequences in the α and α domain subunits of ATP synthetase, myosin, kinases and other ATP requiring enzymes and a common nucleotide binding fold EMBO J. 8 1982 945 951
36. L.G. Waynes, and K.Y. Lin Glyoxylate metabolism and adaptation of Mycobacterium tuberculosis to survival under anaerobic conditions Infect. Immunol. 37 1982 1042 1049
37. L.G. Waynes, and L.G. Haynes An in vitro model for sequential study of shiftdown of Mycobacterium tuberculosis through two stages of non replicating persistence Infect. Immunol. 64 1996 2062 2069
38. L.G. Waynes, and L.G. Haynes Nitrate reduction as a marker for hypoxic shiftdown of Mycobacterium tuberculosis Tuberc. Lung Dis. 79 1998 127 132
39. E.D. Weinberg Iron and susceptibility to infectious disease Science 184 140 1974 952 956
40. W.W. Yew, C.F. Wong, P.C. Wong, J. Lee, and C.H. Chau Adverse neurological reactions in patients with multidrug resistant pulmonary tuberculosis after co-administration of cycloserine and ofloxacin Clin. Infect. Dis. 17 1993 288 289
41. Y. Zhang, B. Heym, B. Allen, D. Young, and S.T. Cole The catalase peroxidase gene and isoniazid resistance of Mycobacterium tuberculosis Nature 358 1992 591 593