I'm facing problem in confidential prediction the 3D structure of a protein.
I have tried to predicted the 3D structure by using multiple online software/tools like I-TASSER, MUSTER, Swiss-Model and (PS)2 but predicted 3D structure from each software has bad quality and can not be verified by SAVES v5.0. All of these software have predicted the structure of only one domain of this protein. I have also done PDB blast to check the structural homologs and i found only 6 homologos and out of these two homologs have similarity with only one domain of my protein.
Kindly guide me what should i do now? I'm working on in-silico nsSNP analysis and i need this structure to check the effect of mutation.