ProCarbDB

ProCarbDB curates 3D X-ray crystallographic structures and residue-level annotations of protein–carbohydrate interactions, distinguishing complete carbohydrate ligands from monomeric units to support analysis of binding affinities and mutation effects.

Key Features:

• Extensive Repository: Contains over 5,200 3D X-ray crystal structures of protein–carbohydrate complexes.
• Distinctive Annotation: Explicitly distinguishes complete carbohydrate ligands from their monomeric units, contrasted with representations in the Protein Data Bank (PDB).
• Detailed Interaction Mapping: Provides residue-level annotations of interactions between carbohydrate ligands and neighboring protein residues.
• Curated Binding Information: Includes curated binding-affinity data and annotations of how mutations affect binding.

Scientific Applications:

• Structural Biology: Enables analysis and modeling of 3D structures of carbohydrate-binding proteins using annotated crystal structures.
• Bioinformatics: Supplies interaction and ligand annotations for computational studies of protein–carbohydrate interfaces.
• Virology and Immunology: Supports investigation of carbohydrate-binding proteins involved in viral recognition and immune responses.
• Drug Discovery: Provides binding-affinity and mutation-effect data relevant to designing therapeutics targeting protein–carbohydrate interactions.

Methodology:

Systematically annotates complete carbohydrate ligands and monomeric units within 3D X-ray crystal structures and records ligand–protein interactions alongside curated binding-affinity and mutation-effect information.