MicroMiner
MicroMiner is a tool for identifying and analyzing single-residue substitutions in protein structures. Based on the SIENA methodology, it searches for residue environments with local sequence and structural similarity across the Protein Data Bank (PDB), user-provided structure collections, or selected subsets of the AlphaFold Protein Structure Database. This enables researchers to explore mutation landscapes in both experimentally determined and predicted protein structures.
Key benefits
Identifies structurally similar residue environments for single-residue substitutions
Combines local sequence and structural similarity
Searches the PDB, private structure collections, and AlphaFold Database subsets
Supports both experimental and predicted protein structures
Applicable to individual domains as well as protein–protein and protein–ligand interfaces
Provides filtering options to facilitate downstream interpretation
Applications
Structural interpretation of amino acid substitutions
Exploration of protein mutation landscapes
Comparison of local residue environments across related structures
Analysis of substitutions in protein domains and binding interfaces
Investigation of mutations in experimental and AlphaFold-predicted structures
Prioritization of structurally relevant mutation examples for downstream studies
Intended use
MicroMiner is intended for structural biologists, protein scientists, bioinformaticians, and researchers studying protein variants or mutations. It is particularly suited for users who want to investigate how single-residue substitutions relate to known structural environments, including mutations located in protein–protein or protein–ligand interfaces.
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