CCRXP

CCRXP identifies conserved residue clusters (CCRs) in protein structures to locate tightly packed regions that correspond to energy hot spots implicated in protein–protein, protein–DNA, and protein–RNA interactions.

Key Features:

• Automated Detection: Accepts a coordinate file in PDB format and systematically identifies conserved residue clusters within the protein structure.
• Structural Property Calculation: Computes residue-level structural properties including solvent accessibility (ASA), secondary structure, and conservation score.
• Enrichment Analysis: Provides statistical evidence that identified CCRs are significantly enriched in energy hot spots within protein–protein and protein–RNA complexes, complementing findings on protein–DNA interactions.

Scientific Applications:

• Protein Function Studies: Pinpoints CCRs to infer regions important for molecular recognition and functional sites in proteins.
• Mutagenesis Target Selection: Identifies strategic conserved residues and clusters for selecting sites for mutagenesis experiments.
• Structural Biology Research: Enables analysis of protein architecture by mapping conserved clusters and their relation to interaction hot spots.

Methodology:

Accepts PDB coordinate input, computes residue properties (ASA, secondary structure, conservation score), and uses an automated workflow to detect conserved residue clusters and assess their enrichment as energy hot spots in molecular interactions.