Protein Prediction Software - Any Recommendations? (template based vs non-template based)

Question

[alexille5640]

From my understanding there are 2 types of methods for predicting protein structure from an amino acid sequence.

1) predicting structure from homology with other proteins which have been crystallized (template-based)

2) predicting structure from amino acid sequence only (template-free).

Is there any software which uses both methods? Also, what is the best software for either of the methods?

[natasha.sernova]

This recent article may be useful.

http://europepmc.org/backend/ptpmcrender.fcgi?accid=PMC5394799&blobtype=pdf

Critical Assessment of Methods of Protein Structure Prediction (CASP) – Progress and New directions in Round XI

Answer 1

[BioinfGuru]

I'm not experienced with non-template methods however the most popular of the template methods are probably:

1) I-Tasser

2) Modeller

3) Swiss-Model

Also take look at Swiss Model v Modeller and other biostars threads on homology modelling