SUMMARY: Electrostatic force is an essential component of the total force acting between atoms and macromolecules. Therefore, accurate calculations of electrostatic forces are crucial for revealing the mechanisms of many biological processes. We developed a DelPhiForce web server to calculate and visualize the electrostatic forces at molecular level. DelPhiForce web server enables modeling of electrostatic forces on individual atoms, residues, domains and molecules, and generates an output that can be visualized by VMD software. Here we demonstrate the usage of the server for various biological problems including protein-cofactor, domain-domain, protein-protein, protein-DNA and protein-RNA interactions. AVAILABILITY AND IMPLEMENTATION: The DelPhiForce web server is available at: http://compbio.clemson.edu/delphi-force. CONTACT: delphi@clemson.edu. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
SUMMARY: Electrostatic force is an essential component of the total force acting between atoms and macromolecules. Therefore, accurate calculations of electrostatic forces are crucial for revealing the mechanisms of many biological processes. We developed a DelPhiForce web server to calculate and visualize the electrostatic forces at molecular level. DelPhiForce web server enables modeling of electrostatic forces on individual atoms, residues, domains and molecules, and generates an output that can be visualized by VMD software. Here we demonstrate the usage of the server for various biological problems including protein-cofactor, domain-domain, protein-protein, protein-DNA and protein-RNA interactions. AVAILABILITY AND IMPLEMENTATION: The DelPhiForce web server is available at: http://compbio.clemson.edu/delphi-force. CONTACT: delphi@clemson.edu. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
Authors: Jiusheng Lin; Henry van den Bedem; Axel T Brunger; Mark A Wilson Journal: Acta Crystallogr D Struct Biol Date: 2016-01-01 Impact factor: 7.652
Authors: Yixin Xie; Chitra B Karki; Dan Du; Haotian Li; Jun Wang; Adebiyi Sobitan; Shaolei Teng; Qiyi Tang; Lin Li Journal: Front Mol Biosci Date: 2020-12-09
Authors: Wenhan Guo; Shengjie Sun; Jason E Sanchez; Alan E Lopez-Hernandez; Tolulope A Ale; Jiawei Chen; Tanjina Afrin; Weihong Qiu; Yixin Xie; Lin Li Journal: Comput Struct Biotechnol J Date: 2022-08-11 Impact factor: 6.155