AbDesign

AbDesign assembles modular protein backbone fragments to generate diverse, atomically precise scaffolds for designing structured loop regions and positioning active-site groups in antibodies and enzymes.

Key Features:

• Modular Approach: Leverages modularity in protein families by combining naturally occurring fragments to assemble new backbones.
• Diverse Backbone Generation: Generates a vast array of backbone conformations by recombining modular elements from homologous protein families, yielding combinatorial diversity that can exceed that found in the Protein Data Bank (PDB).
• High Precision and Control: Provides sub-Ångstrom-level control over the positioning of active-site groups essential for designing antibodies and enzymes.
• Efficiency in Design: Facilitates incorporation of numerous mutations into designed proteins to enable extensive customization and optimization of function.

Scientific Applications:

• Antibody and Enzyme Design: Creates antibodies and enzymes with enhanced or novel functionalities via modular backbone assembly and active-site positioning.
• Protein Engineering: Accesses expanded conformational space for precision engineering of protein structure and function.

Methodology:

Identifies modular fragments from existing proteins within a family, recombines and computationally assembles these fragments into new backbones, and refines the assembled backbones to achieve desired functional properties.