The functionality of biopolymers and of the supermolecular structures in biology depends strongly on the interactions between electronic excitations and the shifts of the electronic density with the conformational changes in these systems. The study of the electronic—conformational interactions can help to form the physical theory of enzymatic activity and of the other biomolecular phenomena. T...

Adequate sampling of conformation space remains challenging in atomistic simulations, especially if the solvent is treated explicitly. Implicit-solvent simulations can speed up conformational sampling significantly. We compare the speed of conformational sampling between two commonly used methods of each class: the explicit-solvent particle mesh Ewald (PME) with TIP3P water model and a popular ...

phospholipids are important for the biological lipid and are commonly used in biophysical studies.A quantumcalculation for two phospholipids Dipalmitoylphosphatidylethanolamine and dipalmitoylphosphatidic acidwere performed using the abinitio software. Geometry optimization structures were obtained at RHF level using3-21G, 6-31G*. These basis sets were used To understanding the effects of envir...

The HET-s prion fibril, which is found in the filamentous fungus Podospora anserina, exhibits conformational changes due to variations in pH. Here, we explain the effects of changing pH on the conformational changes of fibrils through the fundamental eigenmodes of the fibrils, in particular the torsional and bending modes, using a parameter free elastic networkmodel. In particular, themotion re...

The binding data for the interaction of SDS with HI, in aqueous solution at various ionic strengths have been measured by equlibrium dialysis, and investigated spectroscapicaliy. The effect of charge density on the interaction is shown to be of considerable interest. The presence of NaCl causes conformational changes on the structure of HI; whereas this phenomena seems to become more intens...

neuroserpin, a member of the serine proteinase inhibitor (serpin) superfamily, is known to be a neuroprotective factor in the focal ischemic stroke followed by reducing the microglial activation. neuroserpin is a protein rich of methionine residues that can scavenge the free radical species which may increase its neuroprotective effect. on the other hand, the oxidative modifications of the amin...

introduction: congenital long qt syndrome (lqts) is a cardiac disorder characterized by qt interval prolongation at basal ecg. different lqts genes encode ion channel subunits or proteins involved in regulating cardiac ionic currents. long qt syndrome type 6 (lqt6) is caused by mutation in the kcne2 gene. our research aimed to analyze genetic variants of kcne2 gene causing the disease in irania...

The pFlexAna (protein flexibility analyzer) web server detects and displays conformational changes in remotely related proteins, without relying on sequence homology. To do so, it first applies a reliable statistical test to align core protein fragments that are structurally similar and then clusters these aligned fragment pairs into 'super-alignments', according to the similarity of geometric ...