Dear Ben n all,

 

 

i  have got an issue about the side chain of some of the aminoacids that are part of some beta-strands in my predicted model.. is there any way that i can rotate specific amino acids so that their side chains orientation can flip outward which is inward in my predicted model... or can i rotate the whole strand to fix that issue..

 

second question regarding some loops in my model is that one loop kind of intersect the other or you can say passes in between/ thru the other and that makes my model unreal.. can you tell me, how can i resolve this issue????

 

Also can you suggest some tools, web or any way to validate my structure and look for the bad contacts if any, so that i could use this model for futher work....

 

 

Thanking in advance...

 

 

Muhammad