MDM2 is an E3 ubiquitin ligase which is crucial for the degradation and inhibition of the key tumor-suppressor protein p53. In this work, we explored the stability and the conformational features of the N-terminal region of MDM2 (N-MDM2), through whi...
Rhodopsin is the G protein-coupled receptor of rod photoreceptor cells that mediates vertebrate vision at low light intensities. Mutations in rhodopsin cause inherited retinal degenerative diseases such as retinitis pigmentosa. Several therapeutic st...
We performed a comprehensive structural analysis of the conformational space of several spike (S) protein variants using molecular dynamics (MD) simulations. Specifically, we examined four well-known variants (Delta, BA.1, XBB.1.5, and JN.1) alongsid...
Selenium nanoparticles (SeNPs) are among the emerging selenium supplements because of their high bioactivity and low toxicity. However, bare SeNPs are prone to activity loss caused by aggregation and sedimentation. This study aims to stabilize SeNPs...
Myofibrillar protein (MP) from Coilia ectenes taihuensis (CMP) has potential as a natural emulsifier; however, its relatively compact native structure may restrict its functional performance. This study evaluated the effects of ultrasound treatment (...
Structural and functional studies of the SARS-CoV-2 spike proteins have recently determined distinct functional states of the B.1.1.7 and B.1.351 spike variants, providing a molecular framework for understanding the mechanisms that link the effect of...
This study looks at the stability and stabilization issues concerning the nonlinear time-delay systems specified by conformable derivatives. These requirements can be used for many useful applications. Through the construction of appropriate Lyapunov...
This paper presents a novel class of conformable integro-differential operators designed to model systems with rapid and ultra-rapid dynamics. This class of local operators enables the design of controllers and observers that induce hyperexponential...
In this paper, we extend some existing models of the Ebola virus disease through a hybrid impulsive conformable approach. The base of the introduced model is a class of partial differential equations that incorporate diffusion terms to describe the d...
The Omicron variant and its sub-lineages are the only current circulating SARS-CoV-2 viruses worldwide. In this study, the conformational stability of the isolated Receptor Binding Domain (RBD) of Omicron’s spike protein is examined in detail....
In this paper, the impulsive conformable calculus approach is applied to the introduction of an
Weyl conformal gravity was originally proposed in the early twentieth century as an attempt to unify gravitation and electromagnetism. Since 1989, renewed interest in this fourth-order theory of gravity has emerged following the discovery of several...
Protease activity from host cell lines may cause product loss or affect the quality of recombinant proteins. In this study, we showed that excipients like glycine and sorbitol reduce the proteolysis of an immunoglobulin M (IgM) in the presence of add...
In this paper, we investigate the Darboux problem of conformable partial differential equations (DPCDEs) using fixed point theory. We focus on the existence and Ulam–Hyers–Rassias stability (UHRS) of the solutions to the problem, which re...
Owing to a lack of methodology for rationally and selectively synthesizing twisted nanographenes, it is usually inevitable that we obtain nanographenes as a mixture with various geometries, such as unidirectionally twisted, alternatively twisted, ran...
Metaheuristic optimization can strengthen recurrent surrogates, but its value must be judged against controls and hyperparameter optimizers under leakage-free evaluation. We predict five equilibrium protein observables from 20
The aim of this study was to employ molecular dynamics simulations to elucidate the mechanism involved in amylose–zein complexation and the stability of the molecular conformation of amylose–zein complexes in water at the atomic and molec...
A long-term stability study of a manufactured substance, material, or object (a product) is a known task in analytical chemistry (testing) laboratories serving applied science, industry and trade. It is also an important part of development of refere...
Trace metals are essential elements that play key roles in a number of biochemical processes governing human visual physiology in health and disease. Several trace metals, such as zinc, have been shown to play important roles in the visual phototrans...
Detecting the folding/unfolding pathways of biological macromolecules is one of the urgent problems of molecular biophysics. The unfolding of bacterial luciferase from Vibrio harveyi is well-studied, unlike that of Photobacterium leiognathi, despite...
The functional structure of proteins results from marginally stable folded conformations. Reversible unfolding, irreversible denaturation, and deterioration can be caused by chemical and physical agents due to changes in the physicochemical condition...
Alzheimer’s disease is the most fatal neurodegenerative disorder characterized by the aggregation and deposition of Amyloid β (Aβ) oligomers in the brain of patients. Two principal variants of Aβ exist in humans: Aβ1–40 and Aβ1–42. The former is the...
Background: To date, there is no licensed vaccine available to prevent respiratory syncytial virus (RSV) infection. The valuable pre-fusion conformation of the fusion protein (pre-F) is prone to lose high neutralizing antigenic sites. The goals of th...
The interplay between metal ion binding and the activity of thiol proteins, particularly within the protein disulfide isomerase family, remains an area of active investigation due to the critical role that these proteins play in many vital processes....
To improve the dispersion stability of phenol-formaldehyde resin (PFR) particles in simulated oilfield injection water and their propagation ability in petroleum reservoir, a hydrophobically associating polymer (HAP) was employed as a stabilizer in t...
Bilayers of mycolic acids (MAs) form the outer membrane of Mycobacterium tuberculosis that has high strength and extremely low permeability for external molecules (including antibiotics). For the first time, we were able to study them using the all-a...
The first total synthesis of the Australian marine tunicate fungus-derived cyclic peptide talarolide A (1) has confirmed the structure previously proposed on the basis of spectroscopic and chemical analyses and re-affirmed the importance of the uniqu...
Surface charge residues have been recognized as one of the stability determinants in protein. In this study, we sought to compare and analyse the stability and conformational dynamics of staphylococcal lipase mutants with surface lysine mutation usin...
Intrinsically disordered proteins play important roles in cell signaling, and dysregulation of these proteins is associated with several diseases. Prostate apoptosis response-4 (Par-4), an approximately 40 kilodalton proapoptotic tumor suppressor, is...
The two paralogs YAP and TAZ act through TEAD transcription factors and bind PPxY motif proteins in the Hippo pathway via WW domains. YAP has up to two WW domains, whereas TAZ has one. Because YAPWW1 and TAZWW are the most similar in sequence, they c...
During enhanced oil recovery (EOR), reservoir heterogeneities and fluids distributions promote preferential flow channels formation. Therefore, different types of gels have been proposed to improve swept efficiency on chemical flooding by plugging hi...
Reactive intermediate deaminase (Rid) protein family is a recently discovered group of enzymes that is conserved in all domains of life and is proposed to play a role in the detoxification of reactive enamines/imines. UK114, the mammalian member of R...
The addition of glycerol to protein solutions is often used to hinder the aggregation and denaturation of proteins. However, it is not a generalised practice against chemical degradation reactions. The chemical degradation of proteins, such as deamid...
The focus of this research is the qualitative behavior of a reaction–diffusion neural network with distributed delays and conformable derivatives under impulsive perturbations. In particular, the almost periodic behavior of the proposed model i...
P-glycoprotein (P-gp, ABCB1) plays a central role in multidrug resistance and drug pharmacokinetics. In this study, an integrated computational analysis of point amino acid substitutions across the P-gp sequence was performed to evaluate their predic...
Background/Objectives: Low-pH treatment of monoclonal antibodies (mAbs) is commonly employed to inactivate enveloped viruses following Protein A capture chromatography. However, this treatment can sometimes induce conformational changes and aggregati...
G-protein coupled receptors (GPCRs) are transmembrane proteins that transmit signals from the extracellular environment to the inside of the cells. Their ability to adopt various conformational states, which influence their function, makes them cruci...
Xanthan gum is prone to thermal oxidative degradation, which limits its applications. However, conformational changes in xanthan gum and appropriate stabilizers may improve its thermal stability. Therefore, in this study, we aimed to establish a stra...
The ability of d-glucose/d-galactose-binding protein (GGBP) to reversibly interact with its ligands, glucose and galactose, makes this protein an attractive candidate for sensing elements of glucose biosensors. This potential is largely responsible f...
In this paper, we investigate a delayed matrix exponential and utilize it to derive a representation of solutions to a linear nonsingular delay problem with permutable matrices. To begin with, we present a novel definition of
This paper studies the stability properties of a class of Hopfield-type neural networks involving conformable derivatives and piecewise constant arguments. By constructing an associated discrete-time formulation, the continuous system is expressed in...
Predicting inhibitor potency is critical in drug design and development, yet it has remained one of computational biology’s biggest unresolved challenges. Here, we show that in the case of the N-myristoyltransferase (NMT), this problem could be...
In recent years, some Newton-type schemes with noninteger derivatives have been proposed for solving nonlinear transcendental equations by using fractional derivatives (Caputo and Riemann–Liouville) and conformable derivatives. It has also been...
Enzymes purified from psychrophilic microorganisms prove to be efficient catalysts at low temperatures and possess a great potential for biotechnological applications. The low-temperature catalytic activity has to come from specific structural fluctu...
The conformational stability of globular proteins is strongly influenced by the addition to water of different co-solutes. Some of the latter destabilize the native state, while others stabilize it. It is emerging that stabilizing agents are able to...
In this paper, an impulsive conformable fractional Lotka–Volterra model with dispersion is introduced. Since the concept of conformable derivatives avoids some limitations of the classical fractional-order derivatives, it is more suitable for a...
Organic solvent-tolerant (OST) enzymes have been discovered in psychrophiles. Cold-adapted OST enzymes exhibit increased conformational flexibility in polar organic solvents resulting from their intrinsically flexible structures. Proteus mirabilis li...
The histidine phosphocarrier protein (HPr) kinase/phosphorylase (HPrK/P) modulates the phosphorylation state of the HPr protein, and it is involved in the use of carbon sources by Gram-positive bacteria. Its X-ray structure, as concluded from crystal...
The stability of a protein is determined from its properties and surrounding solvent. In our previous study, the total energy as a sum of the conformational and solvation free energies was demonstrated to be an appropriate energy function for evaluat...
By performing differential scanning calorimetry(DSC) measurements on RNase A, we studied the stabilization provided by the addition of potassium aspartate(KAsp) or potassium glutamate (KGlu) and found that it leads to a significant increase in the de...
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