Saturation mutagenesis

Saturation mutagenesis tool: specify one residue position in the protein, and the system automatically replaces the wild-type amino acid at that position with each of the other 19 standard amino acids, returning the predicted ddG (kcal/mol) for every mutation. Optionally, the wild-type residue itself (ddG = 0) can be included as a reference.

Position numbering uses chain + PDB residue numbering (1-based) semantics: first select the target chain below, then enter the PDB residue number on that chain. The wild-type amino acid is read automatically from the structure file.

1. Upload protein structure file (PDB / mmCIF):

3. Saturation mutagenesis settings:

Residue position (PDB numbering):		PDB residue number on the selected chain (1-based)
Include wild-type reference:		When checked, also returns a row for the wild-type residue (ddG = 0)

References

Dieckhaus H, Kuhlman B. Protein stability models fail to capture epistatic interactions of double point mutations. Protein Sci. 2025 Jan;34(1):e70003. doi: 10.1002/pro.70003. PMID: 39704075; PMCID: PMC11659742.