FoldSeek
Some types of search, such as by sequence or structure similarity, require specialized tools. Foldseek is a fast and reliable protein structure similarity lookup algorithm.
How to Use FoldSeek
Find others like 3kwd
FoldSeek runtimes scales with the size of the database used. Typically 0.5 to 1.0 min on the PDB.
Inputs
- PDB File
- Protein structure file.
- Database
A specific database to search against. Copilot currently uses PDB as the default.
Outputs
- List of Hits
- A list of database hits, structurally aligned to the input.
- TM-Score
Score of structural identity between two proteins. Ranges from 0.0 to 1.0, with 0.0 being no match, 1.0 being exact match, and 0.5 being same fold/family.
- Fident
Percentage sequence identity between the database hit and input after structural alignment. 100 means identical sequence match.
Examples
Find similar proteins to MA998
Lookup structures like P42212
