I have been using swiss model to get PDB format of targeted protein ,however the PDB file I got was not containing the initial region of targeted protein, which is actually our desired region so is there any other source to get that .
Ayaz Anwar
Alpha fold is good, but you should model it using Modeller or any online server. It will be a learning exercise and will give you an idea of how modelling is performed.
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Susanta Roy
Here are a few commonly used tools for protein structure prediction:
- SWISS-MODEL (https://swissmodel.expasy.org/)
- Phyre2 (http://www.sbg.bio.ic.ac.uk/phyre2/html/page.cgi?id=index)
- I-TASSER (https://zhanglab.ccmb.med.umich.edu/I-TASSER/)
- ROSETTA (https://www.rosettacommons.org/software)
- Modeller (https://salilab.org/modeller/)
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