Does anyone have experience with RMSF & DSSP Gromacs?

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Ibrahim A Osman

i used vmd to my protein

Maria Teresa Sabino Buenavista

view your average structure (e.g. in VMD or PyMOL) and see if you can associate your fluctuations (you can follow by residue if your dealing with a small protein) ) with any changes in secondary structures. look for dynamic parts as Tobias suggested above