SDPMOD

SDPMOD performs comparative modeling of small disulfide-bonded proteins (SDPs) to generate and evaluate three-dimensional structural models for structural biology and therapeutic design.

Key Features:

• Automated Comparative Modeling Service: Performs automated comparative modeling to generate structural models of SDPs.
• Manual Mode: Allows expert users to manually select a desired template for modeling.
• Semi-Automated Mode: Provides a list of suggested templates from which users can choose to streamline template selection.
• Customizable Target-Template Alignment: Enables editing of the target-template alignment in manual mode to refine model construction.
• Model Quality Evaluation (PROCHECK): Evaluates stereochemical quality of generated models using PROCHECK.

Scientific Applications:

• Drug Design: Provides 3D models of SDPs to support structure-based identification and development of therapeutic agents.
• Structural Biology: Enables exploration and characterization of the structural properties of small disulfide-bonded proteins.

Methodology:

Workflow comprises template selection (manual or from suggested templates), target-template alignment editing, comparative modeling, and stereochemical quality evaluation with PROCHECK.