A software for protein visualisation? That allows to color a precise part of the sequence… ?

More Benjamin Leduc's questions See All

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Annemarie Honegger Popular answer

Almost any protein visualization software will allow you to color the amino acid sequence according to custom specification, if you know the location of the specific subsequence (residue numbers).

In PyMOL (https://pymol.org/2/ for convenient for-pay version, https://sourceforge.net/projects/pymol/ for free version that needs to be compiled), you can use the "findseq" script (https://pymolwiki.org/index.php/Findseq) or the grepsel script (https://pymolwiki.org/index.php/Grepsel) to select specific sequence motif, and apply any coloring and representation commands to that selection only.

See Presentation Introduction to PyMOL

Presentation Intermediate PyMOL

Presentation Advanced PyMOL

on how to use PyMOL.

Annemarie Honegger

Younis Skaik

Great prsentations! I did learn alot from them. Fingers crossed!

Benjamin Leduc

Indeed… PyMOL allows it… Needs first to open the hiden sequence viewer

# to turn the sequence viewer on. set seq_view, 1

Then, select the amino acids, and color them…