OverProt

OverProt generates consensus descriptions of secondary structure elements across protein families using CATH data to characterize conserved and variable helices and β-sheets.

Key Features:

• Secondary Structure Consensus: Constructs a consensus of secondary structure elements for each protein family, explicitly including helices and β-sheets.
• Variability Representation: Represents both the general fold and intra-family structural variations to capture diversity within a family.
• User-defined Queries: Enables computation of secondary structure consensus for specified subsets of a family via user-defined queries.
• Structural Attributes Reporting: Reports attributes for secondary structure elements including element type, length, frequency of occurrence, spatial variability, and β-connectivity.

Scientific Applications:

• Protein structure–function analysis: Supports investigation of how conserved and variable secondary structure elements influence protein function and stability.
• Evolutionary biology: Aids comparative studies of structural conservation and divergence across species and conditions.
• Structural bioinformatics: Provides family-level secondary structure summaries for structural classification and annotation workflows.

Methodology:

Uses precomputed results for all CATH superfamilies and supports computations based on user-defined subsets.