MCPdb

MCPdb catalogs and annotates bacterial microcompartment (BMC) protein structures and their assemblies to support structural and functional analysis of protein-based metabolic organelles.

Key Features:

• Structural Validation and Annotation: Each structure is validated and annotated for predicted natural assembly state, tertiary structure, topology, and metabolic compartment type.
• PF00936 Protein Family Representation: Contains BMC shell proteins primarily from the PF00936 domain family that form tessellating subunits of polyhedral shells.
• Enzyme Encapsulation and Metabolic Function: Documents protein-based shells that encapsulate enzymes performing distinct and specialized metabolic functions across bacteria.
• Symmetric Assembly and Architecture: Emphasizes symmetric assembly and polyhedral architecture derived from thousands of tessellating protein subunits.
• Structural Repository Size: Houses 134 structures representing known microcompartment proteins and assemblies.

Scientific Applications:

• Bacterial Metabolism: Supports investigation of enzyme encapsulation and specialized metabolic pathways within bacterial microcompartments.
• Protein Assembly and Structural Biology: Enables analysis of tertiary structure, topology, and symmetric assembly of BMC shell proteins.
• Comparative Structural Analysis: Facilitates comparison of microcompartment architectures and domain variants such as PF00936 across bacterial species.

Methodology:

Structures are validated and annotated to reflect predicted natural assembly state, tertiary structure, topology, and metabolic compartment type.