3D-Fun

3D-Fun predicts enzyme function from protein three-dimensional structures by comparing structural coordinates with known protein structures.

Key Features:

• Structure-Based Functional Annotation: Predicts enzyme functions by analyzing three-dimensional protein structures rather than relying on sequence similarity.
• Structural Superposition Analysis: Uses the 3D-Hit algorithm to perform structural superposition between query proteins and known protein structures.
• Protein Structure Database Comparison: Compares submitted protein structures against a database of annotated protein structures to identify functional similarities.
• Structural Alignment Visualization: Produces graphical representations of structural alignments to illustrate similarities between proteins.

Scientific Applications:

• Protein Function Prediction: Enables functional annotation of proteins with known structures but unknown enzymatic activity.
• Structural Genomics Analysis: Supports interpretation of newly determined protein structures generated by structural genomics projects.
• Enzyme Discovery and Characterization: Facilitates identification of potential enzymatic functions through structural similarity analysis.

Methodology:

The method accepts protein structures in PDB format and performs three-dimensional structural superposition using the 3D-Hit algorithm to compare the query structure with known protein structures and infer functional similarity.