Free energy analysis of protein-DNA binding: The EcoRI endonuclease-DNA complex

DOI10.1006/jcph.1998.6173zbMath0935.92007OpenAlexW1989430838MaRDI QIDQ1305988

Surjit B. Dixit, K. J. McConnell, D. L. Beveridge, Balasubramaniam Jayaram

Publication date: 4 May 2000

Published in: Journal of Computational Physics (Search for Journal in Brave)

Full work available at URL: https://doi.org/10.1006/jcph.1998.6173

zbMATH Keywords

free energyprotein-DNA binding

Mathematics Subject Classification ID

Biochemistry, molecular biology (92C40) Biophysics (92C05) Thermodynamics and heat transfer (80A99) Applications of statistical mechanics to specific types of physical systems (82D99) Computational methods for problems pertaining to biology (92-08)

Uses Software

• AMBER
• NUCPLOT
• PROCHECK

Cites Work

• AMBER, a package of computer programs for applying molecular mechanics, normal mode analysis, molecular dynamics and free energy calculations to simulate the structural and energetic properties of molecules

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