VMD-SS: A graphical user interface plug-in to calculate the protein secondary structure in VMD program

  • et al.
N/ACitations
Citations of this article
12Readers
Mendeley users who have this article in their library.

Abstract

The investigation on the types of secondary structure (SS) of a protein is important. The evolution of secondary structures during molecular dynamics simulations is a useful parameter to analyze protein structures. Therefore, it is of interest to describe VMD-SS (a software program) for the identification of secondary structure elements and its trajectories during simulation for known structures available at the Protein Data Bank (PDB). The program helps to calculate (1) percentage SS, (2) SS occurrence in each residue, (3) percentage SS during simulation, and (4) percentage residues in all SS types during simulation. The VMD-SS plug-in was designed using TCL script and stride to calculate secondary structure features.

Cite

CITATION STYLE

APA

Yahyavi, M. … Galehdari, H. (2014). VMD-SS: A graphical user interface plug-in to calculate the protein secondary structure in VMD program. Bioinformation, 10(8), 548–550. https://doi.org/10.6026/97320630010548

Register to see more suggestions

Mendeley helps you to discover research relevant for your work.

Already have an account?

Save time finding and organizing research with Mendeley

Sign up for free