How to rotate a pdb file 90 degrees around its x axis in vmd?

Question

[aishaniprem]

Hi, I want to try and rotate my pdb file about 90 degrees around its x-axis and then save the new coordinates using vmd. The rotate option rotates the molecule without changing its coordinates so I cannot use that one.

Answer 1

[natasha.sernova]

This post may be useful:

How To Apply A Rotation Matrix To Pdb File?

By the way, VMD doesn't look so hopeless.

http://sci-hub.cc/10.1002/0471250953.bi0507s24

See Figure 5.7.3. Do you need something different?

See also this post:

Pymol - Independent Rotation Axes For Multiple Molecules

You don't need such a complex construction, but it may help you to some extent.