I am interested in a protein of a non-model organism whose 3-D crystal structure has not been reported. However, the protein's 3-D structure of its related model species has been well studied (collected in PDB database). So I need to predict protein structure using homology approach. I used SWISS-MODEL (http://swissmodel.expasy.org/) to do this job, and found the predicted structure is quite similar with known structure. How confident this approach is? What's the popular tools for protein structure prediction? Any of your suggestions will be much appreciated.
Additionally, what tools you suggest to use for viewing protein structure (ncbi cn3d or pdbviewer or something else)? THANKS A LOT in advance!