Orac (MD program)

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Orac
Original author(s)Massimo Marchi, Piero Procacci
Developer(s)CEA, Saclay, Paris, FR; Florence University, IT
Initial release1990; 29 years ago (1990)
Stable release
5.4.1 / 2010; 9 years ago (2010)
Preview release
6.0 / 2016; 3 years ago (2016)
Written inFortran
Operating systemUnix, Linux
PlatformIA-32, x86-64, NUMA
Available inEnglish
TypeMolecular dynamics
LicenseGPL
Websitewww.chim.unifi.it/orac

In computer software, Orac is a classical molecular dynamics program, to simulate complex molecular systems at the atomistic level. In 1989-1990, the code was written originally by Massimo Marchi during his stay at International Business Machines (IBM), Kingston (USA). In 1995, the code was developed further at the Centre européen de calcul atomique et moléculaire (CECAM). It is written in the programming language Fortran. In 1997, it was released under a GNU General Public License (GPL).[1] The latest release [2] of Orac may be run in parallel using the standard Message Passing Interface (MPI) libraries, allowing replica exchange simulations, multiple walkers metadynamics[3] simulations and multiple steered molecular dynamics[4] nonequilibrium trajectories.

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References[edit]

  1. ^ Procacci, P.; Darden, T.A.; Paci, E.; Marchi, M. (1997). "ORAC: A Molecular Dynamics Program to Simulate Complex Molecular Systems with Realistic Electrostatic Interactions". Journal of Computational Chemistry. 18 (15): 1848–1862. CiteSeerX 10.1.1.554.895. doi:10.1002/(SICI)1096-987X(19971130)18:15<1848::AID-JCC2>3.0.CO;2-O.
  2. ^ Marsili, S.; Signorini, G.F.; Chelli, R.; Marchi, M.; Procacci, P. (2010). "ORAC: A molecular dynamics simulation program to explore free energy surfaces in biomolecular systems at the atomistic level". Journal of Computational Chemistry. 31 (5): 1106–1116. doi:10.1002/jcc.21388. PMID 19824035.
  3. ^ Laio, A.; Gervasio, F. L. (2008). "Metadynamics: A method to simulate rare events and reconstruct the free energy in biophysics, chemistry and material science". Reports on Progress in Physics. 71 (12): 126601. Bibcode:2008RPPh...71l6601L. doi:10.1088/0034-4885/71/12/126601.
  4. ^ Isralewitz, B.; Gao, M.; Schulten, K. (2001). "Steered molecular dynamics and mechanical functions of proteins". Current Opinion in Structural Biology. 11 (2): 224–230. doi:10.1016/S0959-440X(00)00194-9. PMID 11297932.

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