Protposer

Protposer generates a ranked list of mutations with estimated success rates (eSR) that predict which substitutions will increase protein stability by at least 0.5 kcal/mol.

Key Features:

• Mutation Proposals: Identifies candidate mutations that may enhance protein conformational stability.
• Structure- and Sequence-based Screening Modules: Integrates structural and sequence information to screen and filter mutation candidates.
• Logistic Regression Model: Applies a logistic regression model trained to minimize overfitting to score and combine features.
• Estimated Success Rates (eSR): Reports eSR values representing probabilities that proposed mutations will improve stability by at least 0.5 kcal/mol.
• PDB File Analysis: Analyzes Protein Data Bank (PDB) files to identify stabilization opportunities within protein structures.
• Ranked Output: Produces a ranked list of mutation recommendations based on predicted success probabilities.

Scientific Applications:

• Protein stabilization design: Proposes mutations to improve protein conformational stability for biotechnological and medical applications.

Methodology:

Protposer analyzes PDB files and integrates structure- and sequence-based screening modules with a logistic regression model to generate ranked mutation recommendations and estimated success rates (eSR).