Rotational Profiler
Rotational Profiler computes torsional dihedral parameters for classical molecular simulations by fitting empirical energy profiles to reference profiles across the full 360° rotational range.
Key Features:
- Linear Least-Squares Torsion Fitting: Applies linear least-squares regression to derive torsional dihedral parameters that optimally fit empirical energy profiles to experimental or quantum-mechanical reference data.
- Force Field–Compatible Parameterization: Generates torsional parameters compatible with functional forms used in GROMOS, AMBER, OPLS, and CHARMM biomolecular force fields.
Scientific Applications:
- Molecular Mechanics Force Field Development: Supports derivation and optimization of torsional potentials for accurate classical molecular dynamics simulations.
Methodology:
Rotational Profiler fits torsional energy profiles over the complete 360° dihedral rotation using linear least-squares regression to minimize deviations between empirical and reference energies, producing parameter sets consistent with standard biomolecular force field functional forms.
Topics
Details
- Added:
- 1/18/2021
- Last Updated:
- 2/8/2021
Operations
Publications
Rusu VH, Santos DES, Poleto MD, Galheigo MM, Gomes ATA, Verli H, Soares TA, Lins RD. Rotational Profiler: A Fast, Automated, and Interactive Server to Derive Torsional Dihedral Potentials for Classical Molecular Simulations. Journal of Chemical Information and Modeling. 2020;60(12):5923-5927. doi:10.1021/acs.jcim.0c01168. PMID:33213140.
PMID: 33213140
Funding: - Funda??o de Amparo ? Ci?ncia e Tecnologia do Estado de Pernambuco: APQ-0346-2.09/19
- Centro de Pesquisas Aggeu Magalh?es, Funda??o Oswaldo Cruz: VPPIS-001-FIO-18-39
- Conselho Nacional de Desenvolvimento Cient?fico e Tecnol?gico: 425997/2018-9; 400738/2019-8
- Coordena??o de Aperfei?oamento de Pessoal de N?vel Superior: 88882.160170/2014-01
- Instituto Nacional de Ci?ncia e Tecnologia de Fluidos Complexos: 465259/2014-6