5
$\begingroup$

What tools are most widely used for generating a mesh surface of a protein from an x-ray crystallographic structure (from the PDB)? Pros and cons would be appreciated.

I'd prefer the output to be a watertight triangle mesh of the protein surface. Also, I'd like the tool to be scriptable (i.e. no need to open a GUI).

So far, I've been playing with MSMS and EDTSurf. But I was wondering what was standard in research, as well as if there was anything in the standard bioinformatics libraries.

Improve this question
$\endgroup$
1
  • 1
    $\begingroup$ Do you want to visualize the protein surface or the electron density map? (PyMOL can do both.) $\endgroup$
    – user37894
    Commented Feb 15, 2018 at 18:16

1 Answer 1

Reset to default
2
$\begingroup$

PyMOL and Chimera can do that, and both can be script-driven. The PyMOL wiki is full of examples, and probably already has some how-to that would get you started. Chimera also has a complete documentation.

Improve this answer
$\endgroup$

You must log in to answer this question.

Not the answer you're looking for? Browse other questions tagged .