Skip to content
New issue

Have a question about this project? # for a free GitHub account to open an issue and contact its maintainers and the community.

#

By clicking “#”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? # to your account

Jump to bottom

Residue-wise lDDT of an AlphaFold DB protein against a reference from PDB #698

Open
1 of 7 tasks
padix-key opened this issue Nov 8, 2024 · 0 comments
Open
1 of 7 tasks

Residue-wise lDDT of an AlphaFold DB protein against a reference from PDB #698

padix-key opened this issue Nov 8, 2024 · 0 comments
Assignees
@padix-key
Labels
example idea An idea for a new example in the gallery good first issue

Comments

@padix-key
Copy link
Member

This example should fulfill the following tasks:

  • Download a reference protein structure from PDB
  • Download a corresponding model protein structure from AlphaFold DB
  • Superimpose structures with align_homologs()
  • Plot actual residue-wise lDDT (computed with Biotite) against pLDDT (stored in B-factors)
  • Create a molecular visualization with PyMOL encoding the lDDT using color

This example requires the following features to be implemented first
@padix-key padix-key added good first issue example idea An idea for a new example in the gallery labels Nov 8, 2024
@padix-key padix-key self-assigned this Jan 26, 2025
# for free to join this conversation on GitHub. Already have an account? # to comment
Assignees

@padix-key padix-key

Labels
example idea An idea for a new example in the gallery good first issue
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
1 participant
@padix-key