Long-Range Interaction Analysis using Principal Component Analysis

This paper analyzes the long-range interactions, which plays a fundamental and important role in many biologic fields, between residues in protein using principal component analysis (PCA). Firstly, one angular coordinate system of long-range interaction regions is constructed conveniently. Afterwards, a matrix of the angular values of residues can be analyzed by principal component analysis technique. Projecting the angular matrix onto its eigenvectors, it can be found that the projection is to satisfy Boltzmann distribution. By analyzing the thermodynamic environment of the interaction region and scaling the interaction regions, it can be concluded that the distribution of long-range interactions may also be obtained and as a result applied in prediction of contact map.