As a ubiquitous protein tyrosine phosphatase, SHP2 is involved in PD-1/PD-L1 mediated
tumor immune escape and undergoes substantial conformational changes. Therefore, it is …

The density of frequencies of the vibrational spectrum of proteins is the focus of much
interest, as it is quite readily available experimentally, and a prerequisite for the theoretical …

Significant changes in the acoustic response of a fluid can be induced by the suspension of
tiny, subwavelength-size discrete micro-oscillators in the fluid. We investigate how the …

Normal mode analysis (NMA) is an important tool for studying protein dynamics. Because of
the complexity of conventional NMA that uses an all‐atom model and a semi‐empirical force …

ABSTRACT p97 is a protein complex of the AAA+ family. Although functions of p97 are well
understood, the mechanism by which p97 performs its unfolding activities remains unclear …

Normal modes are frequently computed and used to portray protein dynamics and interpret
protein conformational changes. In this work, we investigate the nature of normal modes and …

Dynamics of biomolecular assemblies offer invaluable insights into their functional
mechanisms. For extremely large biomolecular systems, such as HIV-1 capsid that has …

Nucleotide import is critical to the reverse transcription and thus a key step in the life cycle of
HIV-1 virus. In this work, boosted by the recently determined atomic structure of the whole …

Classical normal mode analysis (cNMA) is a standard method for studying the equilibrium
vibrations of macromolecules. A major limitation of cNMA is that it requires a cumbersome …

In this work, we look at the symmetry of normal modes in symmetric structures, particularly
structures with cyclic symmetry. We show that normal modes of symmetric structures have …