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Volumn 27, Issue 2, 1997, Pages 195-203

Analysis of the structure of HIV-1 protease complexed with a hexapeptide inhibitor. Part II: Molecular dynamic studies of the active site region

Author keywords

aspartic protease; HIV 1; molecular dynamics; molecular modeling

Indexed keywords

ASPARTIC PROTEINASE INHIBITOR; PROTEINASE INHIBITOR;

EID: 0031049559     PISSN: 08873585     EISSN: None     Source Type: Journal    
DOI: 10.1002/(SICI)1097-0134(199702)27:2<195::AID-PROT5>3.0.CO;2-F     Document Type: Article
Times cited : (12)

References (26)
  • 1
    • 0025290527 scopus 로고
    • The structure and function of the aspartic proteinases
    • Davies, D.R. The structure and function of the aspartic proteinases. Annu. Rev. Biophys. Biophys. Chem. 19:189-215, 1990.
    • (1990) Annu. Rev. Biophys. Biophys. Chem. , vol.19 , pp. 189-215
    • Davies, D.R.1
  • 2
    • 0024281298 scopus 로고
    • Theoretical calculations on the acidity of the active site in aspartic proteinases
    • Goldblum, A. Theoretical calculations on the acidity of the active site in aspartic proteinases. Biochemistry 27:1653-1658, 1988.
    • (1988) Biochemistry , vol.27 , pp. 1653-1658
    • Goldblum, A.1
  • 3
    • 0026344676 scopus 로고
    • Theoretical models of aspartic proteases: Active site properties, dimer stability and interactions with model inhibitors
    • Dunn, B.M. (ed.). New York: Plenum Press
    • Ryan, A., Fliess, A., Kotler, M., Chorev, M., Goldblum, A. Theoretical models of aspartic proteases: active site properties, dimer stability and interactions with model inhibitors. In: "Structure and Function of the Aspartic Proteinases." Dunn, B.M. (ed.). New York: Plenum Press, 1991:555-558.
    • (1991) Structure and Function of the Aspartic Proteinases , pp. 555-558
    • Ryan, A.1    Fliess, A.2    Kotler, M.3    Chorev, M.4    Goldblum, A.5
  • 4
    • 0026323922 scopus 로고
    • Quantum-chemical study of the catalytic mechanism of aspartic proteinases
    • Dunn, B.M. (ed.). New York: Plenum Press
    • Antonov, V.K., Alexandrov, S.L. Quantum-chemical study of the catalytic mechanism of aspartic proteinases. In: "Structure and Function of the Aspartic Proteinases." Dunn, B.M. (ed.). New York: Plenum Press, 1991:133-137.
    • (1991) Structure and Function of the Aspartic Proteinases , pp. 133-137
    • Antonov, V.K.1    Alexandrov, S.L.2
  • 5
    • 84990701901 scopus 로고
    • Computational studies on aspartic proteases. I. Active-site protonation and hydration in the substrate-free crystalline state
    • Turi, L., Naray-Szabo, G. Computational studies on aspartic proteases. I. Active-site protonation and hydration in the substrate-free crystalline state. Int. J. Quantum. Chem. 42:1537-1551, 1992.
    • (1992) Int. J. Quantum. Chem. , vol.42 , pp. 1537-1551
    • Turi, L.1    Naray-Szabo, G.2
  • 7
    • 16044375105 scopus 로고
    • Crystal structures of HIV-1 protease-inhibitor complexes
    • Appelt, K., Crystal structures of HIV-1 protease-inhibitor complexes. Perspect Drug Discov. Design 1:23-47, 1993.
    • (1993) Perspect Drug Discov. Design , vol.1 , pp. 23-47
    • Appelt, K.1
  • 8
    • 0027218692 scopus 로고
    • Structure-based inhibitors of HIV-1 protease
    • Wlodawer, A., Erickson, J.W. Structure-based inhibitors of HIV-1 protease. Annu. Rev. Biochem. 62:543-585, 1993.
    • (1993) Annu. Rev. Biochem. , vol.62 , pp. 543-585
    • Wlodawer, A.1    Erickson, J.W.2
  • 9
    • 0027219536 scopus 로고
    • Multiple copy simultaneous search and construction of ligands in binding sites: Application to inhibitors of HIV-1 aspartic proteinase
    • Caflisch, A., Miranker, A., Karplus, M. Multiple copy simultaneous search and construction of ligands in binding sites: Application to inhibitors of HIV-1 aspartic proteinase. J. Med. Chem. 36:2142-2167, 1993.
    • (1993) J. Med. Chem. , vol.36 , pp. 2142-2167
    • Caflisch, A.1    Miranker, A.2    Karplus, M.3
  • 10
    • 0026438932 scopus 로고
    • Molecular mechanics analysis of inhibitor binding to HIV-1 protease
    • Sansom, C.E., Weber, I.T. Molecular mechanics analysis of inhibitor binding to HIV-1 protease. Prot. Eng. 5:659-667, 1992.
    • (1992) Prot. Eng. , vol.5 , pp. 659-667
    • Sansom, C.E.1    Weber, I.T.2
  • 14
    • 0027468137 scopus 로고
    • Molecular dynamics simulation of HIV-1 protease in a crystalline environment and in solution
    • York, D.M., Darden, T.A., Pedersen, L.G., Anderson, M.W. Molecular dynamics simulation of HIV-1 protease in a crystalline environment and in solution. Biochemistry 32:1443-1453, 1993.
    • (1993) Biochemistry , vol.32 , pp. 1443-1453
    • York, D.M.1    Darden, T.A.2    Pedersen, L.G.3    Anderson, M.W.4
  • 15
    • 0026717932 scopus 로고
    • Free energy perturbation studies on inhibitor binding to HIV-1 proteinase
    • Rao, B.C., Tilton, R.F., Singh, U.C. Free energy perturbation studies on inhibitor binding to HIV-1 proteinase. J. Am. Chem. Soc. 114:4447-4452, 1992.
    • (1992) J. Am. Chem. Soc. , vol.114 , pp. 4447-4452
    • Rao, B.C.1    Tilton, R.F.2    Singh, U.C.3
  • 16
    • 0025720738 scopus 로고
    • Relative differences in the binding free energies of human immunodeficiency virus 1 protease inhibitors: A thermodynamic cycle-perturbation approach
    • Reddy, M.R., Viswanadhan, V.N., Weinstein, J.N. Relative differences in the binding free energies of human immunodeficiency virus 1 protease inhibitors: A thermodynamic cycle-perturbation approach. Proc. Natl. Acad. Sci. USA 88:10287-10291, 1991.
    • (1991) Proc. Natl. Acad. Sci. USA , vol.88 , pp. 10287-10291
    • Reddy, M.R.1    Viswanadhan, V.N.2    Weinstein, J.N.3
  • 20
    • 33646940952 scopus 로고
    • Numerical integration of the cartesian equations of motion of a system with constraints: Molecular dynamics of n-alkanes
    • Ryckaert, J.P., Ciccotti, G., Berendsen, H.J.C., Numerical integration of the cartesian equations of motion of a system with constraints: molecular dynamics of n-alkanes. J. Comput. Phys. 23:237-341, 1977.
    • (1977) J. Comput. Phys. , vol.23 , pp. 237-341
    • Ryckaert, J.P.1    Ciccotti, G.2    Berendsen, H.J.C.3
  • 21
    • 0025685577 scopus 로고
    • Dynamic properties of the first enzymatic reaction steps of porcine pancreatic elastase: How rigid is the active site of the native enzyme? Molecular Dynamics simulation
    • Geller, M., Carlson-Golab, G., Lesyng, B., Swanson, S.M., Meyer, E.F. Jr. Dynamic properties of the first enzymatic reaction steps of porcine pancreatic elastase: How rigid is the active site of the native enzyme? Molecular Dynamics simulation. Biopolymers 30:781-796, 1990.
    • (1990) Biopolymers , vol.30 , pp. 781-796
    • Geller, M.1    Carlson-Golab, G.2    Lesyng, B.3    Swanson, S.M.4    Meyer Jr., E.F.5
  • 22
    • 0000356656 scopus 로고
    • A graphics model building and refinement system for macromolecules
    • Jones, T.A. A graphics model building and refinement system for macromolecules. J. Appl. Crystallogr 11:268-272, 1978.
    • (1978) J. Appl. Crystallogr , vol.11 , pp. 268-272
    • Jones, T.A.1
  • 23
    • 0024844804 scopus 로고
    • Animation: A useful tool for protein molecular dynamics, applied to hydrogen bonds in the active site of elastase
    • Swanson, S.M., Wesolowski, T., Geller, M., Meyer, E.F., Jr., Animation: a useful tool for protein molecular dynamics, applied to hydrogen bonds in the active site of elastase. J. Mol. Graph. 7:1043-1052, 1989.
    • (1989) J. Mol. Graph. , vol.7 , pp. 1043-1052
    • Swanson, S.M.1    Wesolowski, T.2    Geller, M.3    Meyer Jr., E.F.4
  • 25
    • 0026005186 scopus 로고
    • Human immunodeficiency virus-1 protease. Use of Ph rate studies and solvent kinetic isotope effects to elucidate details of chemical mechanism
    • Hyland, L.J., Tomaszek, T.A. Jr., Meek, T.D., Human immunodeficiency virus-1 protease. Use of Ph rate studies and solvent kinetic isotope effects to elucidate details of chemical mechanism. Biochemistry 30:8454-8463, 1991.
    • (1991) Biochemistry , vol.30 , pp. 8454-8463
    • Hyland, L.J.1    Tomaszek Jr., T.A.2    Meek, T.D.3
  • 26
    • 0343810585 scopus 로고
    • Biosym Technologies 9685 Scranton Rd., San Diego, CA 92121-2777; Mopac Manual James J.P. Stewart (Frank, J. Seiler, Research Laboratory United States Air Force Academy, CO)
    • MOPAC: Molecular Orbital Package (ver.6.0) in Insight II package (1993), Biosym Technologies 9685 Scranton Rd., San Diego, CA 92121-2777; Mopac Manual James J.P. Stewart (Frank, J. Seiler, Research Laboratory United States Air Force Academy, CO).
    • (1993) MOPAC: Molecular Orbital Package (Ver.6.0) in Insight II Package


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