Here you will find a tcl script that contains a procedure able to calculate the properties of S-S bonds as defined by Schmidt et al. published in “Biochemistry (2006) Vol. 45 pp. 7429-7433. The script identifies the S-S bonds in any protein considering that these information are supplied in the pdb file loaded in vmd. These…Details
Here you can download the material relative to the articles published by MBM group members:
- Additional files relative to the work from B. Wang et al. (2013). Isopeptide bonds mechanically stabilize spy0128 in bacterial pili. Biophys J (2013)104(9):2051-7.
Force distribution analysis (FDA) is a method to detect and follow force and stress propagation in proteins, reminiscent of Finite Element Analysis used to engineer macroscopic structures. The method is based on Molecular Dynamics simulations during which we directly calculate forces between each atom pair in a system. The most recent version of FDA is…Details