Greg Chojnowski
@gchojnowski.bsky.social
I build EM and MX models and write software to make it a bit less of a hassle. Some of the code I wrote is a part of CCP4 and CCP-EM.
https://gchojnowski.github.io
https://gchojnowski.github.io
There may be issues with mappings of some depositions, but the repo doesn't check/solve this. It only parses what's in the PDB already.
March 27, 2025 at 7:26 PM
There may be issues with mappings of some depositions, but the repo doesn't check/solve this. It only parses what's in the PDB already.
It seems to use the same ebi api as www.uniprot.org/id-mapping
UniProt
UniProt is the world's leading high-quality, comprehensive and freely accessible resource of protein sequence and functional information.
www.uniprot.org
March 27, 2025 at 6:48 PM
It seems to use the same ebi api as www.uniprot.org/id-mapping
code and a Colab notebok are avilable at
github.com/gchojnowski/...
github.com/gchojnowski/...
GitHub - gchojnowski/gapTrick: rebuilds and completes models of protein complexes using AlphaFold2
rebuilds and completes models of protein complexes using AlphaFold2 - gchojnowski/gapTrick
github.com
February 6, 2025 at 10:07 AM
code and a Colab notebok are avilable at
github.com/gchojnowski/...
github.com/gchojnowski/...
- identifies crucial contacts; very useful for selecting mutagenesis targets
- fixes model geometry. In cryo-EM, stereochemistry is usually the best priors you have!
- helps predicting models of weak complexes that AlphaFold3 cannot
- fixes model geometry. In cryo-EM, stereochemistry is usually the best priors you have!
- helps predicting models of weak complexes that AlphaFold3 cannot
February 6, 2025 at 10:07 AM
- identifies crucial contacts; very useful for selecting mutagenesis targets
- fixes model geometry. In cryo-EM, stereochemistry is usually the best priors you have!
- helps predicting models of weak complexes that AlphaFold3 cannot
- fixes model geometry. In cryo-EM, stereochemistry is usually the best priors you have!
- helps predicting models of weak complexes that AlphaFold3 cannot
there are 2fofc/fofc maps in ccp4 format available in @pdbeurope.bsky.social (EDS map/difference map) and you can open them in coot. but why don't you just fetch them directly in moorhen.org?
Moorhen
Moorhen is a molecular graphics web application based on the Coot desktop program.
moorhen.org
November 13, 2024 at 9:18 PM
there are 2fofc/fofc maps in ccp4 format available in @pdbeurope.bsky.social (EDS map/difference map) and you can open them in coot. but why don't you just fetch them directly in moorhen.org?