How to optimize the homology modeling?

Question

[Laura_zz]

I build a homology model used by Swiss-model, and evaluate the model by SAVEs, but how to further optimizing the model? what tools can I use?

[ATpoint]

Please read this post on how to ask a good scientific question, and then consider to rephrase your question, providing more details in order to motivate people to answer.

Answer 1

[pbpanigrahi]

Do energy minimization to refine the model by relaxing the steric clashes. You can use spdbv viewer to do that.

Answer 2

[Shamim Sarhadi]

There are several tools that you could refine your 3D model e.g. TIGRESS, PREFMD that use different methodological approaches to refine the protein structure models.