Peptide construction does not consider the real properties of amino acids

General Discussion Support
1

Hi! I would like to build a peptide, but how can I get it to consider the real properties of amino acids and show me the real structure of the peptide?
Thank you in advance!

Sincerely,
Maria Angélica

Environment Information

Avogadro version: 1.94
Operating system and version: Windows 10

2

I’m not sure at all what you mean. Do you mean that you want to enter an amino acid sequence and have it predict the likely conformation?

That’s not what Avogadro’s tool does. It’s for intentionally creating a peptide with a specific geometry.

You would want something like AlphaFold, e.g. via Google Colab:

3

Hi!
Yes, I would like to enter an amino acid sequence and simulate the 3D structure of the peptide.
Thank you, I appreciate your support.