167 citations · 436 across the 13 of their papers we have counts for
9 papers · 1 filter
Role of Resultant Dipole Moment in Mechanical Dissociation of Biological Complexes
Maksim Kouza, Anirban Banerji, Andrzej Kolinski +2
Protein-peptide interactions play essential roles in many cellular processes and their structural characterization is the major focus of current experimental and theoretical resear…
Deciphering general characteristics of residues constituting allosteric communication paths
Girik Malik, Anirban Banerji, Maksim Kouza +2
Considering all the PDB annotated allosteric proteins (from ASD - AlloSteric Database) belonging to four different classes (kinases, nuclear receptors, peptidases and transcription…
Modeling of protein-peptide interactions using the CABS-dock web server for binding site search and flexible docking
Maciej Blaszczyk, Mateusz Kurcinski, Maksim Kouza +4
Protein-peptide interactions play essential functional roles in living organisms and their structural characterization is a hot subject of current experimental and theoretical rese…
Protein mechanical unfolding: importance of non-native interactions
Maksim Kouza, Chin-Kun Hu, Hoang Zung +1
Mechanical unfolding of the fourth domain of Distyostelium discoideum filamin (DDFLN4) was studied by all-atom molecular dynamics simulations, using the GROMOS96 force field 43a1 a…
Dependence of protein mechanical unfolding pathways on pulling speeds
Mai Suan Li, Maksim Kouza
Mechanical unfolding of the fourth domain of Distyostelium discoideum filamin (DDFLN4) was studied in detail using the C-Go model. We show that unfolding pathways of this prote…
New force replica exchange method and protein folding pathways probed by force-clamp technique
Maksim Kouza, Chin-Kun Hu, Mai Suan Li
We have developed a new extended replica exchange method to study thermodynamics of a system in the presence of external force. Our idea is based on the exchange between different…
Effect of finite size on cooperativity and rates of protein folding
Maksim Kouza, Mai Suan Li, Edward P. O'Brien +2
We analyze the dependence of cooperativity of the thermal denaturation transition and folding rates of globular proteins on the number of amino acid residues, , using lattice mo…
Folding of the Protein Domain hbSBD
Maksim Kouza, Chi-Fon Chang, Shura Hayryan +4
The folding of the alpha-helice domain hbSBD of the mammalian mitochondrial branched-chain alpha-ketoacid dehydrogenase (BCKD) complex is studied by the circular dichroism techniqu…
Refolding upon force quench and pathways of mechanical and thermal unfolding of ubiquitin
Mai Suan Li, Maksim Kouza, Chin-Kun Hu
The refolding from stretched initial conformations of ubiquitin (PDB ID: 1ubq) under the quenched force is studied using the Go model and the Langevin dynamics. It is shown that th…