Brewery

Brewery predicts protein structural annotations (PSAs) from amino acid sequences using ab initio, evolutionary-informed methods.

Key Features:

• Ab Initio Prediction: Operates independently of template-based methods to predict PSAs for proteins lacking homologous structures.
• Use of Evolutionary Data: Integrates multiple sources of evolutionary information and intrinsic sequence-derived properties to inform predictions.
• Secondary Structure Prediction: Predicts secondary structure elements such as alpha-helices and beta-sheets.
• Structural Motifs Identification: Identifies recurring structural motifs relevant to protein function and interactions.
• Relative Solvent Accessibility: Estimates residue solvent exposure to inform stability and interaction analyses.
• Contact Density Prediction: Predicts contact density maps to provide insights into residue spatial arrangements.

Scientific Applications:

• Three-dimensional structure prediction: Supports inferring 3D structures from amino acid sequences for proteins without structural templates.
• Novel fold characterization: Enables study of proteins with novel folds absent from structural databases.
• Functional and interaction analysis: Facilitates investigation of protein function and interaction networks through structural annotations.
• Evolutionary studies: Assists analysis of evolutionary relationships via integration of evolutionary information in structural predictions.

Methodology:

Brewery applies template-independent ab initio prediction methods that rely on intrinsic sequence-derived properties and integration of multiple evolutionary datasets to generate PSAs including secondary structure, structural motifs, relative solvent accessibility, and contact density maps.