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127 Results Found

  • Article
  • Open Access
10 Citations
4,397 Views
14 Pages

In Silico Prediction of the Dissociation Rate Constants of Small Chemical Ligands by 3D-Grid-Based VolSurf Method

  • Shuheng Huang,
  • Linxin Chen,
  • Hu Mei,
  • Duo Zhang,
  • Tingting Shi,
  • Zuyin Kuang,
  • Yu Heng,
  • Lei Xu and
  • Xianchao Pan

Accumulated evidence suggests that binding kinetic properties—especially dissociation rate constant or drug-target residence time—are crucial factors affecting drug potency. However, quantitative prediction of kinetic properties has alway...

  • Article
  • Open Access
5 Citations
2,215 Views
12 Pages

24 October 2018

Dissociation processes of gas hydrate-bearing sediment particles in water flow condition were investigated. Experiments were carried out by observing a spherical CO2 hydrate-bearing sediment (CHBS) particle settling in water. The release process of g...

  • Article
  • Open Access
2,055 Views
15 Pages

State-to-State Rate Constants for the O(3P)H2(v) System: Quasiclassical Trajectory Calculations

  • Alexey V. Pelevkin,
  • Ilya V. Arsentiev,
  • Ilya N. Kadochnikov,
  • Ivan A. Zubrilin,
  • Evgeny P. Filinov and
  • Denis V. Yakushkin

28 June 2024

The rate constants of elementary processes in the atom–diatom system O(3P)+H2(v), including the processes of vibrational relaxation and dissociation, were studied using the quasiclassical trajectory method. All calculations were carried out alo...

  • Communication
  • Open Access
8 Citations
4,032 Views
9 Pages

27 February 2021

The binding affinity of ligands for their receptors is determined by their kinetic and thermodynamic binding properties. Kinetic analyses of the rate constants of association and dissociation (kon and koff, respectively) of antihistamines have sugges...

  • Article
  • Open Access
7 Citations
4,658 Views
21 Pages

A Robust Assay to Monitor Ataxin-3 Amyloid Fibril Assembly

  • Francisco Figueiredo,
  • Mónica Lopes-Marques,
  • Bruno Almeida,
  • Nena Matscheko,
  • Pedro M. Martins,
  • Alexandra Silva and
  • Sandra Macedo-Ribeiro

19 June 2022

Spinocerebellar ataxia type 3 (SCA3) is caused by the expansion of a glutamine repeat in the protein ataxin-3, which is deposited as intracellular aggregates in affected brain regions. Despite the controversial role of ataxin-3 amyloid structures in...

  • Review
  • Open Access
4 Citations
3,265 Views
35 Pages

13 February 2025

Eukaryotic actin filaments play a central role in numerous cellular functions, with each function relying on the interaction of actin filaments with specific actin-binding proteins. Understanding the mechanisms that regulate these interactions is key...

  • Article
  • Open Access
1,723 Views
12 Pages

Theoretical Kinetic Study of Thermal Decomposition of 5-Methyl-2-ethylfuran

  • Wei He,
  • Cheng Wang,
  • Qichuan Zhang,
  • Kaixuan Chen,
  • Linghao Shen,
  • Yan Li and
  • Kang Shen

With the advancement of new synthetic techniques, 5-Methyl-2-ethylfuran (5-MEF) has emerged as a promising renewable biofuel. In this study, the potential energy surfaces for the unimolecular dissociation reaction, H-addition reaction, and H-abstract...

  • Feature Paper
  • Article
  • Open Access
1 Citations
1,538 Views
16 Pages

20 June 2024

Gas hydrate plugs in petroleum fluid pipelines are a major flow assurance problem and thus, it is important for industry to have reliable mathematical models for estimating the time required to dissociate a hydrate pipeline plug. The existing mathema...

  • Article
  • Open Access
8 Citations
3,312 Views
15 Pages

10 May 2020

The research of the formation mechanism of iron carbides is significant to design the high-performance catalysts for the Fischer–Tropsch synthesis (FTS) process. In this paper, the effect of potassium promoter on the formation of atomic carbon...

  • Article
  • Open Access
1 Citations
3,746 Views
17 Pages

Accelerated Evolution of Cytochrome c in Higher Primates, and Regulation of the Reaction between Cytochrome c and Cytochrome Oxidase by Phosphorylation

  • Sue Ellen Brand,
  • Martha Scharlau,
  • Lois Geren,
  • Marissa Hendrix,
  • Clayre Parson,
  • Tyler Elmendorf,
  • Earl Neel,
  • Kaila Pianalto,
  • Jennifer Silva-Nash and
  • Francis Millett
  • + 1 author

12 December 2022

Cytochrome c (Cc) underwent accelerated evolution from the stem of the anthropoid primates to humans. Of the 11 amino acid changes that occurred from horse Cc to human Cc, five were at Cc residues near the binding site of the Cc:CcO complex. Single-p...

  • Article
  • Open Access
1 Citations
2,597 Views
14 Pages

Inhibition of E. coli RecQ Helicase Activity by Structurally Distinct DNA Lesions: Structure—Function Relationships

  • Ana H. Sales,
  • Vincent Zheng,
  • Maya A. Kenawy,
  • Mark Kakembo,
  • Lu Zhang,
  • Vladimir Shafirovich,
  • Suse Broyde and
  • Nicholas E. Geacintov

9 December 2022

DNA helicase unwinding activity can be inhibited by small molecules and by covalently bound DNA lesions. Little is known about the relationships between the structural features of DNA lesions and their impact on unwinding rates and processivities. Em...

  • Article
  • Open Access
16 Citations
3,662 Views
19 Pages

20 January 2021

Most early-stage drug discovery projects focus on equilibrium binding affinity to the target alongside selectivity and other pharmaceutical properties. Since many approved drugs have nonequilibrium binding characteristics, there has been increasing i...

  • Review
  • Open Access
3 Citations
3,817 Views
16 Pages

13 February 2024

Surface Plasmon Resonance (SPR) technology is known to be a powerful tool for studying biomolecular interactions because it offers real-time and label-free multiparameter analysis with high sensitivity. This article summarizes the results that have b...

  • Article
  • Open Access
2 Citations
2,141 Views
25 Pages

16 November 2023

The development of methane hydrate extraction technology remains constrained due to the limited physical understanding of hydrate dissociation dynamics. While recent breakthroughs in pore-scale visualization techniques offer intuitive insights into t...

  • Article
  • Open Access
9 Citations
5,127 Views
20 Pages

Expanding the Ligand Classes Used for Mn(II) Complexation: Oxa-aza Macrocycles Make the Difference

  • Ferenc K. Kálmán,
  • Viktória Nagy,
  • Rocío Uzal-Varela,
  • Paulo Pérez-Lourido,
  • David Esteban-Gómez,
  • Zoltán Garda,
  • Kristof Pota,
  • Roland Mezei,
  • Agnès Pallier and
  • Gyula Tircsó
  • + 2 authors

10 March 2021

We report two macrocyclic ligands based on a 1,7-diaza-12-crown-4 platform functionalized with acetate (tO2DO2A2−) or piperidineacetamide (tO2DO2AMPip) pendant arms and a detailed characterization of the corresponding Mn(II) complexes. The X−ray stru...

  • Article
  • Open Access
5 Citations
2,998 Views
14 Pages

Formation and dissociation of pore gas hydrates in permafrost can change its properties, including fluid flow capacity. Permeability is one of the most significant parameters in the study of hydrate-containing rocks, especially in the case of gas bur...

  • Article
  • Open Access
12 Citations
2,704 Views
12 Pages

7 October 2023

Quantitative biomacromolecular diagnosis is rapidly developing in molecular oncology. In this study, we developed a continuous flow immunoassay device based on a piezoelectric (PZ) quartz crystal biosensor fabricated with whole-electrode occupation f...

  • Article
  • Open Access
21 Citations
9,817 Views
15 Pages

25 June 2003

The dissociation of an ammonia molecule on a cluster of Si atoms simulating the 100 silicon crystal structure with two Si dimers has been investigated by means of the DFT and an approximate instanton methods. The model corresponds to the low coverage...

  • Article
  • Open Access
56 Citations
9,314 Views
22 Pages

28 July 2014

Based on the available measurement data and literature on the hydrate deposits of the South China Sea, a numerical simulation with a new dual horizontal well system has been carried out. Warm brine stimulation combined with depressurization is employ...

  • Article
  • Open Access
19 Citations
3,998 Views
12 Pages

Investigation and Comparison of Specific Antibodies’ Affinity Interaction with SARS-CoV-2 Wild-Type, B.1.1.7, and B.1.351 Spike Protein by Total Internal Reflection Ellipsometry

  • Ieva Plikusiene,
  • Vincentas Maciulis,
  • Silvija Juciute,
  • Ruta Maciuleviciene,
  • Saulius Balevicius,
  • Arunas Ramanavicius and
  • Almira Ramanaviciene

18 May 2022

SARS-CoV-2 vaccines provide strong protection against COVID-19. However, the emergence of SARS-CoV-2 variants has raised concerns about the efficacy of vaccines. In this study, we investigated the interactions of specific polyclonal human antibodies...

  • Feature Paper
  • Article
  • Open Access
3 Citations
2,914 Views
17 Pages

N2O Hydrogenation on Silver Doped Gold Catalysts, a DFT Study

  • José L. C. Fajín and
  • Maria Natália D. S. Cordeiro

25 January 2022

In this study, the full reaction mechanism for N2O hydrogenation on silver doped Au(210) surfaces was investigated in order to clarify the experimental observations. Density functional theory (DFT) calculations were used to state the most favorable r...

  • Article
  • Open Access
2 Citations
2,324 Views
22 Pages

19 July 2022

Since 1980, one of the most promising solutions for the exploitation of natural gas hydrate reservoirs was found to be the replacement of methane with carbon dioxide in order to improve the efficiency of methane recovery and, at the same time, perman...

  • Article
  • Open Access
2 Citations
2,369 Views
13 Pages

10 January 2023

The photodissociation dynamics of CF2BrCF2I in CCl4 at 280 ± 2 K were investigated by probing the C−F stretching mode from 300 fs to 10 μs after excitation at 267 nm using time-resolved infrared spectroscopy. The excitation led to the...

  • Article
  • Open Access
15 Citations
7,340 Views
16 Pages

Enhancement of Binding Affinity of Folate to Its Receptor by Peptide Conjugation

  • Roopa Dharmatti,
  • Hideyuki Miyatake,
  • Avanashiappan Nandakumar,
  • Motoki Ueda,
  • Kenya Kobayashi,
  • Daisuke Kiga,
  • Masayuki Yamamura and
  • Yoshihiro Ito

(1) Background: The folate receptor (FR) is a target for cancer treatment and detection. Expression of the FR is restricted in normal cells but overexpressed in many types of tumors. Folate was conjugated with peptides for enhancing binding affinity...

  • Article
  • Open Access
12 Citations
5,111 Views
16 Pages

28 January 2019

To elucidate the relative nucleation rates of different polymorphs, a competitive kinetic model is developed based on classical nucleation theory to describe the time evolution of two different polymorphic cluster size distributions controlled by the...

  • Article
  • Open Access
11 Citations
7,300 Views
14 Pages

The Effect of Carbon Monoxide Co-Adsorption on Ni-Catalysed Water Dissociation

  • Abas Mohsenzadeh,
  • Anders Borjesson,
  • Jeng-Han Wang,
  • Tobias Richards and
  • Kim Bolton

26 November 2013

The effect of carbon monoxide (CO) co-adsorption on the dissociation of water on the Ni(111) surface has been studied using density functional theory. The structures of the adsorbed water molecule and of the transition state are changed by the presen...

  • Article
  • Open Access
5 Citations
4,217 Views
18 Pages

K+ and Rb+ Affinities of the Na,K-ATPase α1 and α2 Isozymes: An Application of ICP-MS for Quantification of Na+ Pump Kinetics in Myofibers

  • Hesamedin Hakimjavadi,
  • Cory A. Stiner,
  • Tatiana L. Radzyukevich,
  • Jerry B. Lingrel,
  • Natalie Norman,
  • Julio A. Landero Figueroa and
  • Judith A. Heiny

12 September 2018

The potassium affinities of Na,K-ATPase isozymes are important determinants of their physiological roles in skeletal muscle. This study measured the apparent K+ and Rb+ affinities of the Na,K-ATPase α1 and α2 isozymes in intact, dissociat...

  • Article
  • Open Access
1 Citations
3,670 Views
17 Pages

Heterochannels Kv(1.1-1.2)2 and Their Interactions with Pore Blockers

  • Anastasija V. Efremenko,
  • Elena V. Kryukova,
  • Oleg V. Kazakov,
  • Anastasia A. Ignatova,
  • Ivan I. Shmatin,
  • Varvara N. Korabeynikova,
  • Victoria A. Toporova,
  • Sergey A. Yakimov,
  • Mikhail P. Kirpichnikov and
  • Alexey V. Feofanov
  • + 1 author

2 September 2025

Heterotetramerization of Kv1.1 and Kv1.2 α-subunits expands the functional diversity of voltage-gated potassium Kv1 channels in the central nervous system (CNS), thus necessitating the study of the properties of these heterochannels, including...

  • Article
  • Open Access
2 Citations
3,533 Views
26 Pages

Complexes of Bifunctional DO3A-N-(α-amino)propinate Ligands with Mg(II), Ca(II), Cu(II), Zn(II), and Lanthanide(III) Ions: Thermodynamic Stability, Formation and Dissociation Kinetics, and Solution Dynamic NMR Studies

  • Zoltán Garda,
  • Tamara Kócs,
  • István Bányai,
  • José A. Martins,
  • Ferenc Krisztián Kálmán,
  • Imre Tóth,
  • Carlos F. G. C. Geraldes and
  • Gyula Tircsó

16 August 2021

The thermodynamic, kinetic, and structural properties of Ln3+ complexes with the bifunctional DO3A-ACE4− ligand and its amide derivative DO3A-BACE4− (modelling the case where DO3A-ACE4− ligand binds to vector molecules) have been studied in order to...

  • Article
  • Open Access
2 Citations
2,904 Views
13 Pages

28 July 2021

This paper presents the results of the study on the course of the benzyl chloride (BzCl) ionization process in a drift tube ion mobility spectrometer (DT IMS) in which nitrogen was used as the carrier gas. BzCl ionization follows the dissociative ele...

  • Feature Paper
  • Article
  • Open Access
6 Citations
4,629 Views
18 Pages

The Wnt signalling pathway plays an important role in cell proliferation, differentiation, and fate decisions in embryonic development and the maintenance of adult tissues. The twelve armadillo (ARM) repeat-containing protein β-catenin acts as the si...

  • Article
  • Open Access
2 Citations
2,532 Views
13 Pages

Unusually Fast bis-Histidyl Coordination in a Plant Hemoglobin

  • Stefania Abbruzzetti,
  • Alex J. Barker,
  • Irene Villar,
  • Carmen Pérez-Rontomé,
  • Stefano Bruno,
  • Giulio Cerullo,
  • Cristiano Viappiani and
  • Manuel Becana

The recently identified nonsymbiotic hemoglobin gene MtGlb1-2 of the legume Medicago truncatula possesses unique properties as it generates four alternative splice forms encoding proteins with one or two heme domains. Here we investigate the ligand b...

  • Feature Paper
  • Article
  • Open Access
7 Citations
3,241 Views
23 Pages

20 July 2021

Using dynamic liquid-state NMR spectroscopy a degenerate double proton tautomerism was detected in tetramethyl reductic acid (TMRA) dissolved in toluene-d8 and in CD2Cl2. Similar to vitamin C, TMRA belongs to the class of reductones of biologically i...

  • Article
  • Open Access
4 Citations
2,732 Views
17 Pages

The article presents the results of an experimental comparison of methane transport in the pore structure of a membrane catalyst under isothermal and non-isothermal Knudsen diffusion conditions. It is shown that under the conditions of non-isothermal...

  • Article
  • Open Access
8 Citations
3,092 Views
15 Pages

Temperature Variation during Salt Migration in Frozen Hydrate-Bearing Sediments: Experimental Modeling

  • Evgeny Chuvilin,
  • Valentina Ekimova,
  • Dinara Davletshina,
  • Boris Bukhanov,
  • Ekaterina Krivokhat and
  • Vladimir Shilenkov

Salt migration may be another reason why pore-gas hydrates dissociate in permafrost, besides pressure and temperature changes. Temperature variations in frozen hydrate-saturated sediments interacting with a NaCl solution have been studied experimenta...

  • Article
  • Open Access
21 Citations
6,162 Views
11 Pages

Adsorption of Titanium Halides on Nitride and Oxide Surfaces during Atomic Layer Deposition: A DFT Study

  • Jeongwoo Park,
  • Neung Kyung Yu,
  • Donghak Jang,
  • Eunae Jung,
  • Hyunsik Noh,
  • Jiwon Moon,
  • Deoksin Kil and
  • Bonggeun Shong

23 July 2020

Various processes based on atomic layer deposition (ALD) have been reported for growing Ti-based thin films such as TiN and TiO2. To improve the uniformity and conformity of thin films grown via ALD, fundamental understanding of the precursor–s...

  • Article
  • Open Access
4 Citations
3,409 Views
19 Pages

Intensification of Dry Reforming of Methane on Membrane Catalyst: Confirmation and Development of the Hypothesis

  • Natalia Gavrilova,
  • Sergey Gubin,
  • Maria Myachina,
  • Valentin Sapunov and
  • Valery Skudin

23 January 2022

This article presents an analysis of kinetic studies of dry methane reforming (DRM) in a reactor with a membrane catalyst (RMC) in the modes of a contactor with “diffusion” and “forced” mass transfer. Comparison of the specifi...

  • Communication
  • Open Access
2 Citations
1,628 Views
6 Pages

Transforming growth factor β1 (TGF-β1) is critical to cell differentiation, proliferation, and apoptosis. It is important to understand the binding affinity between TGF-β1 and its receptors. In this study, their binding force was measu...

  • Article
  • Open Access
3 Citations
3,079 Views
21 Pages

The Processivity of Telomerase: Insights from Kinetic Simulations and Analyses

  • Clive R. Bagshaw,
  • Jendrik Hentschel and
  • Michael D. Stone

13 December 2021

Telomerases are moderately processive reverse transcriptases that use an integral RNA template to extend the 3′ end of linear chromosomes. Processivity values, defined as the probability of extension rather than dissociation, range from about 0...

  • Article
  • Open Access
7 Citations
2,710 Views
10 Pages

26 October 2020

κ-Conotoxin-PVIIA (κ-PVIIA) is a potassium-channel blocking peptide from the venom of the fish-hunting snail, Conus purpurascens, which is essential for quick prey’s excitotoxic immobilization. Binding of one κ-PVIIA to Shaker...

  • Article
  • Open Access
19 Citations
7,452 Views
12 Pages

Salmonella Typhimurium is one of the leading causes of foodborne diseases worldwide. Biosensors and immunoassays utilizing monoclonal antibodies are widely used for the detection and subtyping of S. Typhimurium. However, due to insufficient informati...

  • Article
  • Open Access
10 Citations
8,429 Views
12 Pages

Modeling Hybridization Kinetics of Gene Probes in a DNA Biochip Using FEMLAB

  • Ahsan Munir,
  • Hassan Waseem,
  • Maggie R. Williams,
  • Robert D. Stedtfeld,
  • Erdogan Gulari,
  • James M. Tiedje and
  • Syed A. Hashsham

Microfluidic DNA biochips capable of detecting specific DNA sequences are useful in medical diagnostics, drug discovery, food safety monitoring and agriculture. They are used as miniaturized platforms for analysis of nucleic acids-based biomarkers. B...

  • Review
  • Open Access
7 Citations
3,398 Views
26 Pages

Kinetics and Timescales in Bio–Nano Interactions

  • André F. Lima and
  • Alioscka A. Sousa

28 October 2023

Engineered nanoparticles (NPs) have the potential to revolutionize disease diagnostics and treatment. However, NP interactions with proteins in biological fluids complicate their in vivo control. These interactions often lead to the formation of prot...

  • Communication
  • Open Access
12 Citations
3,798 Views
7 Pages

Unveiling the Molecular Basis of the Noonan Syndrome-Causing Mutation T42A of SHP2

  • Angelo Toto,
  • Francesca Malagrinò,
  • Lorenzo Visconti,
  • Francesca Troilo and
  • Stefano Gianni

Noonan syndrome (NS) is a genetic disorder caused by the hyperactivation of the RAS-MAPK molecular pathway. About 50% of NS cases are caused by mutations affecting the SHP2 protein, a multi-domain phosphatase with a fundamental role in the regulation...

  • Article
  • Open Access
1 Citations
2,532 Views
11 Pages

Synthesis of LiPON Solid Electrolyte Films by Thermal Evaporation of Lithium Orthophosphate

  • Nikolay Gavrilov,
  • Alexander Kamenetskikh,
  • Petr Tretnikov and
  • Alexey Ershov

13 October 2023

Lithium phosphorus-oxynitride (LiPON) films were deposited by the method of anodic evaporation of Li3PO4 in the nitrogen plasma of a low-pressure arc. A method for adjusting the degree of decomposition of vapors is proposed based on a change in the f...

  • Article
  • Open Access
798 Views
16 Pages

10 September 2025

Dinitrosyl iron complexes (DNICs) are the most abundant nitric oxide (NO) metabolites in NO-producing cells and can be used as a platform for photochemical vehicles for NO donors. However, not much is known about the photochemical dynamics of DNICs....

  • Feature Paper
  • Article
  • Open Access
5 Citations
1,576 Views
26 Pages

30 May 2024

An analysis was carried out on the thermal dissociation of selected inorganic salts according to Transition-State Theory (TST). For this purpose, two possibilities were compared in the context of rate constants: in the first case using the Arrhenius...

  • Article
  • Open Access
16 Citations
5,820 Views
18 Pages

27 April 2012

O2 adsorption is a key process for further understanding the mechanism of selective CO oxidation (SCO) on gold catalysts. Rate constants related to the elementary steps of O2 adsorption, desorption and surface bonding, as well as the respective activ...

  • Article
  • Open Access
1,446 Views
12 Pages

9 January 2025

In the present work, we performed calculations of the kinetic isotope effect (KIE) on H/D, 14N/15N, 16O/18O, and 12C/13C isotopic substitution in the dissociation of beta-sheet polyglycine dimers of different lengths into two monomer chains. This dis...

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