ChimeraX rendering of PDB 3TNU. Coiled coil contacts side chains are shown as sticks.
Last month I wrote a blog on my Biochemistry Blog about computing the number of residues within an alpha helix. This was in relation to a project concerning predicting a “coiled-coil” structure. It was more complicated than I thought.
The link to the original article is here:
Computing residues per turn in an alpha helix
Of interest in that I created a Docker container to run a software that while available on-line is only on a single server in India and does not always work, or times out.
The Docker image which is available on Docker hub as: helanal-ub20. More details are in the original post on how to create HELIX records for a PDB file, most easily with UCSF Chimera.
Other useful software links are provided in the original blog post for helping in the prediction of coiled-coil, in both sequence (Waggawagga) and structure or to build models (Helanal Plus, CCBuilder 2.0, CCCP, Socket2)