I need to make a structure for an unknown viral protein. I prefer online tools
Dear Nima Hemmat
#One of the most used is PyMOL > https://pymol.org/2/
#As well as this online tool > https://www.proteinmodelportal.org/?pid=modelling_interactive
#Similar questions, with good answers > > https://www.researchgate.net/post/Is_there_a_tool_software_to_predict_3D_structure_of_a_protein_only_from_its_sequence_and_subsequently_mutate_residues
> https://www.biostars.org/p/287156/
#A good list of tools > https://molbiol-tools.ca/Protein_tertiary_structure.htm
#A guide for protein structure prediction methods and software >
https://medium.com/@HeleneOMICtools/a-guide-for-protein-structure-prediction-methods-and-software-916a2f718cfe
Best regards,
Leite
Dear Nima,
In addition to the suggestions made by Giuseppe I would recommend:
I-Tasser
https://zhanglab.ccmb.med.umich.edu/I-TASSER/
This program requires nothing but the FASTA form of the primary sequence of your protein.
PS. You need to register (just give an e-mail address where you want to receive the result). A little warning: the result can take a couple of days (depending on the size of your protein). Last but not least: you need a program to visualize the result (Chimera for example).
Good luck!
You can use Ponderosa Prediction Server to make an NMR-like ensemble.
http://ponderosa.nmrfam.wisc.edu/model.html
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