Fundamental processes in living cells are largely controlled by macromolecular interactions
and among them, protein protein interactions (PPIs) have a critical role while their …

In Silico Drug Discovery and Design: Theory, Methods, Challenges, and Applications
provides a comprehensive, unified, and in-depth overview of the current methodological …

Numerous biological processes in a cell are carried out by protein complexes. To
understand the molecular mechanisms of such processes, it is crucial to know the …

Protein-protein interactions are the cornerstone of numerous biological processes. Although
an increasing number of protein complex structures have been determined using …

Motivation The root mean square deviation (RMSD) is one of the most used similarity criteria
in structural biology and bioinformatics. Standard computation of the RMSD has a linear …

Finding the root mean sum of squared deviations (RMSDs) between two coordinate vectors
that correspond to the rigid body motion of a macromolecule is an important problem in …

The majority of protein oligomers form clusters which are nearly symmetric. Understanding
of that imperfection, its origins, and perhaps also its advantages requires the conversion of …

Messenger RNA is recruited to the eukaryotic ribosome by a complex including the
eukaryotic initiation factor (eIF) 4E (the cap‐binding protein), the scaffold protein eIF4G and …

Protein-protein docking algorithms are powerful computational tools, capable of analyzing
the protein-protein interactions at the atomic-level. In this chapter, we will review the …

ATP synthases are large enzymes present in every living cell. They consist of a
transmembrane and a soluble domain, each comprising multiple subunits. The …