RosettaCommons / RosettaCommons/RFdiffusion
Multiple active site scaffolding is possible?
Nobody has claimed this yet.
- Dominant language
- Python
- Stars
- 3.1k
- Forks
- 644
- PR merge metrics
- No merged PRs in 30d
Description
In a recent paper from RFdiffusion author, Joseph L. Watson,
Accurate single domain scaffolding of three non-overlapping protein epitopes using deep learning (https://www.biorxiv.org/content/10.1101/2024.05.07.592871v1.full.pdf)
It seems like RFjoint2 can inpaint single scaffold for three different activate sites generated from three different PDB (RSV epitopes).
So I tried to perform the same procedures but RFDesign github
says it is better to do RFdiffusion since it performs better.
The same process is possible also in RFdiffsuion?
The current motif-scaffolding script example in the github
seems to have only one PDB as input.
Thanks
Contributor guide
No contributing guide indexed for this repository
First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Start by reviewing the repository's motif-scaffolding script example and the linked RFjoint2 paper to compare how multiple epitopes are represented. Determine whether RFdiffusion supports one scaffold for three non-overlapping active sites, and document the required configuration or the missing capability.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- bioinformatics, machine-learning
- Issue type
- Feature
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100