> ## Documentation Index
> Fetch the complete documentation index at: https://docs.boltz.bio/llms.txt
> Use this file to discover all available pages before exploring further.

# Tips

> Best practices for protein binder design

<CardGroup cols={2}>
  <Card title="Virtual Screen Budget">
    Start with a small pilot (30-100 designs) to validate your setup, specifications, and predictions. Once everything looks correct, scale up to 10k-100k designs per campaign—the larger the better, especially for difficult targets or modalities.
  </Card>

  <Card title="Target Selection">
    Keep target crops under 350 residues for optimal performance. Select epitope residues to guide binding, and mark flexible regions if you expect conformational changes.
  </Card>

  <Card title="Binder Specification Design">
    For antibodies/nanobodies, focus design on CDR regions. Use variable-length CDR3 (10-25 residues) to increase diversity. Exclude problematic amino acids (e.g., Cysteine) to prevent unwanted interactions.
  </Card>

  <Card title="Candidate Evaluation">
    Review top performers first by binding confidence, then examine 3D structures to ensure poses are reasonable. Use tags to organize candidates by different criteria (affinity, pose quality, diversity).
  </Card>
</CardGroup>