[modeller_usage] Questions about alignment and stereo clashes

Dear Modeller Users,

Hope this email finds you well! I’m recently working on homology modeling of Dopamine D1 receptor. Can I ask two questions?

1. Am I able to use the sequence alignment from external sources, like Blast?

2. When the model was built, I found many stereo clashes in the structure. Is this normal? Is there any way that I can fix the stereo clashes?

Thank you so much, Haoxi