Re: [gmx-users] RMSD analysis and stability

On 9/15/19 7:27 AM, Bratin Kumar Das wrote: You can see the radius of gyration, number of hydrogen bond, native contact etc for assessing the stability Overall, "stability" implies persistence of important interactions (really it implies knowledge of free energy of the system, but

Re: [gmx-users] RMSD analysis and stability

You can see the radius of gyration, number of hydrogen bond, native contact etc for assessing the stability On Sun 15 Sep, 2019, 4:32 PM Quin K, wrote: > Thank you! > What else should I be looking for? > [image: mailcastr branding] Sent with Mailcastr > < >

Re: [gmx-users] RMSD analysis and stability

Thank you! What else should I be looking for? [image: mailcastr branding] Sent with Mailcastr On Sun, Sep 15, 2019 at 4:16 PM Justin Lemkul wrote: > > > On 9/15/19 5:30 AM, Quin K wrote: > > Hi everyone!

Re: [gmx-users] RMSD analysis and stability

On 9/15/19 5:30 AM, Quin K wrote: Hi everyone! I have done a MD simulation for a protein structure at 310K (100ns) this is the RMSD at around 65 ns kindly comment on the stability. Will I have to rerun the MD? Kindly let me know how to decide stability by analyzing RMSD. RMSD alone is

[gmx-users] RMSD analysis and stability

Hi everyone! I have done a MD simulation for a protein structure at 310K (100ns) this is the RMSD at around 65 ns kindly comment on the stability. Will I have to rerun the MD? Kindly let me know how to decide stability by analyzing RMSD. For backbone