2
$\begingroup$

The structure of insulin shown below appears in a Wikipedia entry.

What software was (or can be) used to create pictures of this type?

structure of insulin

$\endgroup$
  • 1
    $\begingroup$ Have you tried to Google protein 3D visualization? $\endgroup$ – Remi.b Jun 9 '18 at 18:41
  • 1
    $\begingroup$ Please give a reference to this particular example. You are surely aware that Wikipedia's contributors (not users) are completely independent and thus use whatever software they choose to create molecular images. This is hardly a question about biology, and, as @Remi.b said, you can find out about different molecular graphics software. You might also wish to look at the PDB site, which used two alternatives in their displays. But none are simple push-button programs, but require you to learn proprietory scripting commands. $\endgroup$ – David Jun 9 '18 at 18:56
  • $\begingroup$ Also please note that in English the word software is uncountable, and "softwares" does NOT exist. You need to say "software programs" or "pieces of software" to pluralize. $\endgroup$ – David Jun 9 '18 at 19:01
  • $\begingroup$ I really appreciate your comments 👍 $\endgroup$ – ostal123 Jun 9 '18 at 19:02
  • $\begingroup$ there are plenty. Try autodock for a start $\endgroup$ – The Last Word Jun 9 '18 at 19:28
3
$\begingroup$

All comments are great, there are numerous software programs that allow you to make such images.


Gathering information about the insulin structure

By simply clicking on the image in wikipedia it will provide you with valuable information:

Created by Isaac Yonemoto created with en:pymol, en:inkscape, and en:gimp from NMR structure 1ai0 in the en:pdb. Ref: Chang, X., Jorgensen, A.M., Bardrum, P., Led, J.J.

So the creators used pymol, inkscape and gimp, but let's dig a bit deeper. Unfortunately Isaac Yonemoto, the editor of this wiki, did not provide a direct link to the original publication (see wiki file history). However by searching the author names in combination with insulin we quickly find the article: Solution structures of the R6 human insulin hexamer. In the first paragraph we see:

The atomic coordinates of the 20 refined hexamer structures and the NMR-derived restraints have been deposited in the Brookhaven Data Bank (PDB ID codes 1AIY and 1AI0 for the symmetric and the nonsymmetric hexamer, respectively)

You can find the structure that was depicted in this wiki article by searching the PDB id.


Creation vs visualization
You can interpret 'create' in your question in two ways here:

  • Creating this whole structure from nothing
  • Visualizing a structure someone else determined

If you refer to the former you should look at the article corresponding to this structure. Note that this is quite detailed and requires knowledge of several concepts, such as molecular dynamics and NMR spectroscopy. If you refer to the latter than you should take a look at the programs mentioned earlier such as pymol, inkscape and gimp


Not generalizable
This boils down to what @David already said in his comment:

You are surely aware that Wikipedia's contributors (not users) are completely independent and thus use whatever software they choose to create molecular images.

$\endgroup$
  • $\begingroup$ Just to add, the author of that specific image did cite the PDB ID which allows you to find the structure, paper, etc in RCSB. $\endgroup$ – canadianer Jul 11 at 20:56

Your Answer

By clicking “Post Your Answer”, you agree to our terms of service, privacy policy and cookie policy

Not the answer you're looking for? Browse other questions tagged or ask your own question.