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Volumn 49, Issue 1, 2009, Pages 35-42

Knowledge based identification of potent antitubercular compounds using structure based virtual screening and structure interaction fingerprints

Author keywords

[No Author keywords available]

Indexed keywords

BONE; CELL CULTURE; CHEMOTHERAPY; HYDROGEN BONDS; KNOWLEDGE BASED SYSTEMS; MAMMALS; MICROWAVE INTEGRATED CIRCUITS;

EID: 61949212798     PISSN: 15499596     EISSN: 1549960X     Source Type: Journal    
DOI: 10.1021/ci8003607     Document Type: Article
Times cited : (36)

References (35)
  • 1
    • 17644388063 scopus 로고    scopus 로고
    • Annulling a dangerous liaison: Vaccination strategies against AIDS and tuberculosis
    • Kaufmann, S. H.; McMichael, A. J. Annulling a dangerous liaison: vaccination strategies against AIDS and tuberculosis. Nat. Med. 2005, 11, S33-44.
    • (2005) Nat. Med , vol.11
    • Kaufmann, S.H.1    McMichael, A.J.2
  • 2
    • 61949354783 scopus 로고    scopus 로고
    • accessed Nov 3, 2008
    • WHO World Health Organization. Factsheet on tuberculosis; 2005. http://www.who.int/mediacentre/factsheets/fs104/en/index.html (accessed Nov 3, 2008).
    • (2005) Factsheet on tuberculosis
  • 3
    • 33645119729 scopus 로고    scopus 로고
    • Emergence of Mycobucterium tuberculosis with extensive resistance to second-line drugs-worldwide, 2000-2004
    • CDC
    • CDC. Emergence of Mycobucterium tuberculosis with extensive resistance to second-line drugs-worldwide, 2000-2004. MMWR 2006, 55, 301-305.
    • (2006) MMWR , vol.55 , pp. 301-305
  • 4
    • 77956943185 scopus 로고
    • Boyer, P. D, Ed, Academic Press: New York
    • Anderson, E. P. In The Enzymes; Boyer, P. D.; Ed.; Academic Press: New York, 1973; Vol. 8, pp 49-96.
    • (1973) The Enzymes , vol.8 , pp. 49-96
    • Anderson, E.P.1
  • 5
    • 0035800652 scopus 로고    scopus 로고
    • X-ray structure of TMP kinase from Mycobacterium tuberculosis complexed with TMP at 1.95 Å resolution
    • Sierra, L. D. L.; Munier-Lehmann, H.; Gilles, A. M.; Bârzu, O.; Delarue, M. X-ray structure of TMP kinase from Mycobacterium tuberculosis complexed with TMP at 1.95 Å resolution. J. Mol. Biol. 2001, 311, 87-100.
    • (2001) J. Mol. Biol , vol.311 , pp. 87-100
    • Sierra, L.D.L.1    Munier-Lehmann, H.2    Gilles, A.M.3    Bârzu, O.4    Delarue, M.5
  • 6
    • 0037037402 scopus 로고    scopus 로고
    • Synthesis and evaluation of thymidine-5′-O-mono-phosphate analogues as inhibitors of Mycobacterium tuberculosis thymidylate kinase
    • Vanheusden, V.; Munier-Lehmann, H.; Pochet, S.; Herdewijn, P.; Van Calenbergh, S. Synthesis and evaluation of thymidine-5′-O-mono-phosphate analogues as inhibitors of Mycobacterium tuberculosis thymidylate kinase. Bioorg. Med. Chem. Lett. 2002, 12, 2695-2698.
    • (2002) Bioorg. Med. Chem. Lett , vol.12 , pp. 2695-2698
    • Vanheusden, V.1    Munier-Lehmann, H.2    Pochet, S.3    Herdewijn, P.4    Van Calenbergh, S.5
  • 7
    • 0038136960 scopus 로고    scopus 로고
    • Enzymatic and structural analysis of inhibitors designed against Mycobacterium tuberculosis thymidylate kinase. New insights into the phosphoryl transfer mechanism
    • Haouz, A.; Vanheusden, V.; Munier-Lehmann, H.; Froeyen, M.; Herdewijn, P.; Van Calenbergh, S.; Delarue, M. Enzymatic and structural analysis of inhibitors designed against Mycobacterium tuberculosis thymidylate kinase. New insights into the phosphoryl transfer mechanism. J. Biol. Chem. 2003, 278, 4963-4971.
    • (2003) J. Biol. Chem , vol.278 , pp. 4963-4971
    • Haouz, A.1    Vanheusden, V.2    Munier-Lehmann, H.3    Froeyen, M.4    Herdewijn, P.5    Van Calenbergh, S.6    Delarue, M.7
  • 11
    • 9744241646 scopus 로고    scopus 로고
    • Discovery of bicyclic thymidine analogues as selective and high-affinity inhibitors of Mycobacterium tuberculosis thymidine monophosphate kinase
    • Vanheusden, V.; Munier-Lehmann, H.; Froeyen, M.; Busson, R.; Rozenski, J.; Herdewijn, P.; Van Calenbergh, S. Discovery of bicyclic thymidine analogues as selective and high-affinity inhibitors of Mycobacterium tuberculosis thymidine monophosphate kinase. J. Med. Chem. 2004, 47, 6187-6194.
    • (2004) J. Med. Chem , vol.47 , pp. 6187-6194
    • Vanheusden, V.1    Munier-Lehmann, H.2    Froeyen, M.3    Busson, R.4    Rozenski, J.5    Herdewijn, P.6    Van Calenbergh, S.7
  • 12
    • 0042970469 scopus 로고    scopus 로고
    • Comparative study of purine and pyrimidine nucleoside analogues acting on the thymidylate kinases of Mycobacterium tuberculosis and of humans
    • Pochet, S.; Dugue, L.; Labesse, G.; Delepierre, M.; Munier-Lehmann, H. Comparative study of purine and pyrimidine nucleoside analogues acting on the thymidylate kinases of Mycobacterium tuberculosis and of humans. ChemBioChem 2003, 4, 742-747.
    • (2003) ChemBioChem , vol.4 , pp. 742-747
    • Pochet, S.1    Dugue, L.2    Labesse, G.3    Delepierre, M.4    Munier-Lehmann, H.5
  • 13
    • 61949312220 scopus 로고    scopus 로고
    • INSIGHT II, Version 2000.1; Accelrys Inc, San Diego, U.S.A, 2000
    • INSIGHT II, Version 2000.1; Accelrys Inc.: San Diego, U.S.A., 2000.
  • 14
    • 61949337426 scopus 로고    scopus 로고
    • SYBYL Molecular Modeling System, Version 7.1; TRIPOS Assoc. Inc, St. Louis, MO, 2006
    • SYBYL Molecular Modeling System, Version 7.1; TRIPOS Assoc. Inc.: St. Louis, MO, 2006.
  • 15
    • 0028337945 scopus 로고
    • Flexible 3D searching: The directed tweak technique
    • Hurst, T. Flexible 3D searching: The directed tweak technique. J. Chem. Inf. Comput. Sci. 1994, 34, 190-196.
    • (1994) J. Chem. Inf. Comput. Sci , vol.34 , pp. 190-196
    • Hurst, T.1
  • 16
    • 0030599010 scopus 로고    scopus 로고
    • A fast flexible docking method using an incremental construction algorithm
    • Rarey, M.; Kramer, B.; Lengauer, T.; Klebe, G. A fast flexible docking method using an incremental construction algorithm. J. Mol. Biol. 1996, 261, 470-489.
    • (1996) J. Mol. Biol , vol.261 , pp. 470-489
    • Rarey, M.1    Kramer, B.2    Lengauer, T.3    Klebe, G.4
  • 17
    • 0028854034 scopus 로고
    • Molecular recognition of receptor sites using a genetic algorithm with a description of desolvation
    • Jones, G.; Willett, P.; Glen, G. Molecular recognition of receptor sites using a genetic algorithm with a description of desolvation. J. Mol. Biol. 1995, 245, 43-53.
    • (1995) J. Mol. Biol , vol.245 , pp. 43-53
    • Jones, G.1    Willett, P.2    Glen, G.3
  • 18
    • 0033545622 scopus 로고    scopus 로고
    • A general and fast scoring function for protein-ligand interactions: A simplified potential approach
    • Muegge, I.; Martin, Y. C. A general and fast scoring function for protein-ligand interactions: a simplified potential approach. J. Med. Chem. 1999, 42, 791-804.
    • (1999) J. Med. Chem , vol.42 , pp. 791-804
    • Muegge, I.1    Martin, Y.C.2
  • 19
    • 84986432941 scopus 로고
    • Automated docking with grid-based energy evaluation
    • Meng, E. C.; Shoichet, B. K.; Kuntz, I. D. Automated docking with grid-based energy evaluation. J. Comput. Chem. 1992, 13, 505-524.
    • (1992) J. Comput. Chem , vol.13 , pp. 505-524
    • Meng, E.C.1    Shoichet, B.K.2    Kuntz, I.D.3
  • 20
    • 0031226772 scopus 로고    scopus 로고
    • The development of a fast empirical scoring function to estimate the binding affinity of ligands in receptor complexes
    • Eldridge, M. D.; Murray, C. W.; Auton, T. R.; Paolini, G. V.; Mee, R. P. The development of a fast empirical scoring function to estimate the binding affinity of ligands in receptor complexes. J. Comput.-Aided Mol. Des. 1997, 11, 425-445.
    • (1997) J. Comput.-Aided Mol. Des , vol.11 , pp. 425-445
    • Eldridge, M.D.1    Murray, C.W.2    Auton, T.R.3    Paolini, G.V.4    Mee, R.P.5
  • 21
    • 0346962971 scopus 로고    scopus 로고
    • Structural Interaction Fingerprint (SIFt): A Novel Method for Analyzing Three dimensional Protein-Ligand Binding Interactions
    • Deng, Z.; Chuaqui, C.; Singh, J. Structural Interaction Fingerprint (SIFt): A Novel Method for Analyzing Three dimensional Protein-Ligand Binding Interactions. J. Med. Chem. 2004, 47, 337-344.
    • (2004) J. Med. Chem , vol.47 , pp. 337-344
    • Deng, Z.1    Chuaqui, C.2    Singh, J.3
  • 22
    • 12144249613 scopus 로고    scopus 로고
    • Interaction Profiles of Protein Kinase-Inhibitor Complexes and Their Application to Virtual Screening
    • Chuaqui, C.; Deng, Z.; Singh, J. Interaction Profiles of Protein Kinase-Inhibitor Complexes and Their Application to Virtual Screening. J. Med. Chem. 2005, 48, 121-133.
    • (2005) J. Med. Chem , vol.48 , pp. 121-133
    • Chuaqui, C.1    Deng, Z.2    Singh, J.3
  • 23
    • 31544479320 scopus 로고    scopus 로고
    • Knowledge-Based Design of Target-Focused Libraries Using Protein-Ligand Interaction Constraints
    • Deng, Z.; Chuaqui, C.; Singh, J. Knowledge-Based Design of Target-Focused Libraries Using Protein-Ligand Interaction Constraints. J. Med. Chem. 2006, 49, 490-500.
    • (2006) J. Med. Chem , vol.49 , pp. 490-500
    • Deng, Z.1    Chuaqui, C.2    Singh, J.3
  • 24
    • 33745095576 scopus 로고    scopus 로고
    • Structural Interaction Fingerprints: A New Approach to Organizing, Mining, Analyzing, and Designing Protein-Small Molecule Complexes
    • Singh, J.; Deng, Z.; Narale, G.; Chuaqui, C. Structural Interaction Fingerprints: A New Approach to Organizing, Mining, Analyzing, and Designing Protein-Small Molecule Complexes. Chem. Biol. Drug. Des. 2006, 67, 5-12.
    • (2006) Chem. Biol. Drug. Des , vol.67 , pp. 5-12
    • Singh, J.1    Deng, Z.2    Narale, G.3    Chuaqui, C.4
  • 25
    • 0028304962 scopus 로고
    • Satisfying hydrogen bonding potential in proteins
    • McDonald, I. K.; Thornton, J. M. Satisfying hydrogen bonding potential in proteins. J. Mol. Biol. 1994, 238, 777-793.
    • (1994) J. Mol. Biol , vol.238 , pp. 777-793
    • McDonald, I.K.1    Thornton, J.M.2
  • 26
    • 37049239596 scopus 로고
    • A Computer Program for Classifying Plants
    • Rogers, D. J.; Tanimoto, T. T. A Computer Program for Classifying Plants. Science 1960, 132, 1115-1118.
    • (1960) Science , vol.132 , pp. 1115-1118
    • Rogers, D.J.1    Tanimoto, T.T.2
  • 27
    • 0019280022 scopus 로고
    • Clustering Methodologies in Exploratory Data Analysis
    • Dubes, R.; Jain, A. K. Clustering Methodologies in Exploratory Data Analysis. Adv. Comput. 1980, 19, 113-228.
    • (1980) Adv. Comput , vol.19 , pp. 113-228
    • Dubes, R.1    Jain, A.K.2
  • 28
    • 61949269649 scopus 로고    scopus 로고
    • SYSTAT for Windows, Version 12; SYSTAT Software Inc.: Rich-mound, CA, 2007.
    • SYSTAT for Windows, Version 12; SYSTAT Software Inc.: Rich-mound, CA, 2007.
  • 29
    • 0345545834 scopus 로고
    • Susceptibility testing of mycobacteria
    • McClachy, J. K. Susceptibility testing of mycobacteria. Lab. Med. 1978, 9, 47-52.
    • (1978) Lab. Med , vol.9 , pp. 47-52
    • McClachy, J.K.1
  • 30
    • 0021061819 scopus 로고
    • Rapid colorimeteric assay for cellular growth and survival: Application to proliferation and cytotoxicity assays
    • Mosmann, T. Rapid colorimeteric assay for cellular growth and survival: Application to proliferation and cytotoxicity assays. J. Im-munnol. Methods 1983, 65, 55-63.
    • (1983) J. Im-munnol. Methods , vol.65 , pp. 55-63
    • Mosmann, T.1
  • 31
    • 33745595051 scopus 로고    scopus 로고
    • Minimizing false positives in kinase virtual screens
    • Perola, E. Minimizing false positives in kinase virtual screens. Proteins 2006, 64, 422-435.
    • (2006) Proteins , vol.64 , pp. 422-435
    • Perola, E.1
  • 32
    • 0345269288 scopus 로고    scopus 로고
    • Virtual screening for submicro-molar leads of tRNA-guanine transglycosylase based on a new unexpected binding mode detected by crystal structure analysis
    • Brenk, R.; Naerum, L.; Gradier, U.; Gerber, H. D.; Garcia, G. A.; Reuter, K.; Stubbs, M. T.; Klebe, G. Virtual screening for submicro-molar leads of tRNA-guanine transglycosylase based on a new unexpected binding mode detected by crystal structure analysis. J. Med. Chem. 2003, 46, 1133-1143.
    • (2003) J. Med. Chem , vol.46 , pp. 1133-1143
    • Brenk, R.1    Naerum, L.2    Gradier, U.3    Gerber, H.D.4    Garcia, G.A.5    Reuter, K.6    Stubbs, M.T.7    Klebe, G.8
  • 33
    • 42749090651 scopus 로고    scopus 로고
    • Is it possible to increase hit rates in structure-based virtual screening by pharmacophore filtering? An investigation of the advantages and pitfalls of post-filtering
    • Muthas, D.; Sabnis, Y. A.; Lundborg, M.; Karlen, A. Is it possible to increase hit rates in structure-based virtual screening by pharmacophore filtering? An investigation of the advantages and pitfalls of post-filtering. J. Mol. Graphics Modell. 2007, 26, 1237-1251.
    • (2007) J. Mol. Graphics Modell , vol.26 , pp. 1237-1251
    • Muthas, D.1    Sabnis, Y.A.2    Lundborg, M.3    Karlen, A.4
  • 34
    • 33749245117 scopus 로고    scopus 로고
    • Prediction of protein-ligand interactions. Docking and scoring: Successes and gaps
    • Leach, A. R.; Shoichet, B. K.; Peishoff, C. E. Prediction of protein-ligand interactions. Docking and scoring: Successes and gaps. J. Med. Chem. 2006, 49, 5851-5855.
    • (2006) J. Med. Chem , vol.49 , pp. 5851-5855
    • Leach, A.R.1    Shoichet, B.K.2    Peishoff, C.E.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.