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Volumn 79, Issue 2, 2009, Pages

Massively parallel computation of absolute binding free energy with well-equilibrated states

Author keywords

[No Author keywords available]

Indexed keywords

DIHEDRAL ANGLE; FREE ENERGY; LIGANDS; MOLECULES; NUCLEIC ACIDS; PROTEINS;

EID: 63149192208     PISSN: 15393755     EISSN: 15502376     Source Type: Journal    
DOI: 10.1103/PhysRevE.79.021914     Document Type: Article
Times cited : (85)

References (52)
  • 3
    • 4243754128 scopus 로고    scopus 로고
    • 10.1103/PhysRevLett.78.2690
    • C. Jarzynski, Phys. Rev. Lett. 78, 2690 (1997). 10.1103/PhysRevLett.78. 2690
    • (1997) Phys. Rev. Lett. , vol.78 , pp. 2690
    • Jarzynski, C.1
  • 4
    • 0000186593 scopus 로고    scopus 로고
    • 10.1103/PhysRevE.61.2361
    • G. E. Crooks, Phys. Rev. E 61, 2361 (2000). 10.1103/PhysRevE.61.2361
    • (2000) Phys. Rev. e , vol.61 , pp. 2361
    • Crooks, G.E.1
  • 6
    • 0035333627 scopus 로고    scopus 로고
    • 10.1063/1.1363668
    • G. Hummer, J. Chem. Phys. 114, 7330 (2001). 10.1063/1.1363668
    • (2001) J. Chem. Phys. , vol.114 , pp. 7330
    • Hummer, G.1
  • 8
    • 5244304444 scopus 로고
    • 10.1016/0021-9991(76)90078-4
    • C. H. Bennett, J. Comput. Phys. 22, 245 (1976). 10.1016/0021-9991(76) 90078-4
    • (1976) J. Comput. Phys. , vol.22 , pp. 245
    • Bennett, C.H.1
  • 11
    • 63149160826 scopus 로고    scopus 로고
    • Ph.D. thesis, Department of Chemistry, Stanford University
    • M. R. Shirts, Ph.D. thesis, Department of Chemistry, Stanford University, 2004.
    • (2004)
    • Shirts, M.R.1
  • 14
    • 33749532284 scopus 로고    scopus 로고
    • 10.1529/biophysj.106.084301
    • J. Wang, Y. Deng, and B. Roux, Biophys. J. 91, 2798 (2006). 10.1529/biophysj.106.084301
    • (2006) Biophys. J. , vol.91 , pp. 2798
    • Wang, J.1    Deng, Y.2    Roux, B.3
  • 20
    • 0001041959 scopus 로고    scopus 로고
    • 10.1002/(SICI)1096-987X(20000130)21:2<132::AID-JCC5>3.0.CO;2-P
    • A. Jakalian, B. L. Bush, D. B. Jack, and C. I. Bayly, J. Comput. Chem. 21, 132 (2000). 10.1002/(SICI)1096-987X(20000130)21:2<132::AID-JCC5>3.0. CO;2-P
    • (2000) J. Comput. Chem. , vol.21 , pp. 132
    • Jakalian, A.1    Bush, B.L.2    Jack, D.B.3    Bayly, C.I.4
  • 28
    • 20544435097 scopus 로고    scopus 로고
    • 10.1529/biophysj.104.051938
    • E. J. Sorin and V. S. Pande, Biophys. J. 88, 2472 (2005). 10.1529/biophysj.104.051938
    • (2005) Biophys. J. , vol.88 , pp. 2472
    • Sorin, E.J.1    Pande, V.S.2
  • 29
    • 63149134597 scopus 로고    scopus 로고
    • E-PLEEE8-79-115902 for the unified force field files for pdb2gmx. For more information on EPAPS, see
    • See EPAPS Document No. E-PLEEE8-79-115902 for the unified force field files for pdb2gmx. For more information on EPAPS, see http://www.aip.org/ pubservs/epaps.html.
  • 32
    • 33645530165 scopus 로고    scopus 로고
    • 10.1103/PhysRevLett.96.120602
    • M. A. Cuendet, Phys. Rev. Lett. 96, 120602 (2006). 10.1103/PhysRevLett. 96.120602
    • (2006) Phys. Rev. Lett. , vol.96 , pp. 120602
    • Cuendet, M.A.1
  • 33
    • 36849122972 scopus 로고
    • 10.1063/1.1740409
    • R. W. Zwanzig, J. Chem. Phys. 22, 1420 (1954). 10.1063/1.1740409
    • (1954) J. Chem. Phys. , vol.22 , pp. 1420
    • Zwanzig, R.W.1
  • 39
    • 84943502952 scopus 로고
    • 10.1080/00268978400101201
    • S. Nosé, Mol. Phys. 52, 255 (1984). 10.1080/00268978400101201
    • (1984) Mol. Phys. , vol.52 , pp. 255
    • Nosé, S.1
  • 40
    • 0001538909 scopus 로고
    • 10.1103/PhysRevA.31.1695
    • W. G. Hoover, Phys. Rev. A 31, 1695 (1985). 10.1103/PhysRevA.31.1695
    • (1985) Phys. Rev. A , vol.31 , pp. 1695
    • Hoover, W.G.1
  • 45
    • 34547830982 scopus 로고    scopus 로고
    • 10.1016/j.chemphys.2007.07.014
    • Y. Tanida, M. Ito, and H. Fujitani, Chem. Phys. 337, 135 (2007). 10.1016/j.chemphys.2007.07.014
    • (2007) Chem. Phys. , vol.337 , pp. 135
    • Tanida, Y.1    Ito, M.2    Fujitani, H.3
  • 46
    • 17544366862 scopus 로고    scopus 로고
    • 10.1016/j.fluid.2004.09.017
    • D. A. Kofke, Fluid Phase Equilib. 228-229, 41 (2005). 10.1016/j.fluid.2004.09.017
    • (2005) Fluid Phase Equilib. , vol.228-229 , pp. 41
    • Kofke, D.A.1
  • 50
    • 0037434582 scopus 로고    scopus 로고
    • 10.1021/jm020406h
    • A. N. Jain, J. Med. Chem. 46, 499 (2003). 10.1021/jm020406h
    • (2003) J. Med. Chem. , vol.46 , pp. 499
    • Jain, A.N.1


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