Hydrogen Bonding in Natural and Unnatural Base Pairs—A Local Vibrational Mode Study DOI Creative Commons

Nassim Beiranvand,

Marek Freindorf, Elfi Kraka

et al.

Molecules, Journal Year: 2021, Volume and Issue: 26(8), P. 2268 - 2268

Published: April 14, 2021

In this work hydrogen bonding in a diverse set of 36 unnatural and the three natural Watson Crick base pairs adenine (A)–thymine (T), (A)–uracil (U) guanine (G)–cytosine (C) was assessed utilizing local vibrational force constants derived from mode analysis, originally introduced by Konkoli Cremer as unique bond strength measure based on spectroscopy. The analysis complemented topological electronic density orbital analysis. most interesting findings our study are that (i) is not exceptionally strong (ii) N–H⋯N favorable both while O–H⋯N/O bonds less found at all pairs. addition, important role non-classical C–H⋯N/O for stabilization revealed, especially C–H⋯O Hydrogen modeled DNA via QM/MM approach showed environment increases central bonds, same time decreases N–H⋯O bond. However, general trends observed gas phase calculations remain unchanged. new methodology presented tested provides bioengineering community with an efficient design tool to assess predict type artificial

Language: Английский

Eutectics: formation, properties, and applications DOI
Dongkun Yu, Zhimin Xue, Tiancheng Mu

et al.

Chemical Society Reviews, Journal Year: 2021, Volume and Issue: 50(15), P. 8596 - 8638

Published: Jan. 1, 2021

Various eutectic systems have been proposed and studied over the past few decades. Most of studies focused on three typical types eutectics: metals, salts, deep solvents. On one hand, they are all systems, their principle is same. other representative inorganic organic substances, respectively. They applications in almost fields related to chemistry. Their different but overlapping stem from very properties. In addition, proposal new has greatly boosted development cross-field research involving chemistry, materials, engineering, energy. The goal this review provide a comprehensive overview these eutectics describe task-specific strategies address growing demands.

Language: Английский

Citations

272

The Nature of Hydrogen Bonds: A Delineation of the Role of Different Energy Components on Hydrogen Bond Strengths and Lengths DOI Creative Commons
Stephanie C. C. van der Lubbe, Célia Fonseca Guerra

Chemistry - An Asian Journal, Journal Year: 2019, Volume and Issue: 14(16), P. 2760 - 2769

Published: June 26, 2019

Hydrogen bonds are a complex interplay between different energy components, and their nature is still subject of an ongoing debate. In this minireview, we therefore provide overview the perspectives on hydrogen bonding. This will be done by discussing following individual components: 1) electrostatic interactions, 2) charge-transfer 3) π-resonance assistance, 4) steric repulsion, 5) cooperative effects, 6) dispersion interactions 7) secondary interactions. We demonstrate how these energetic factors essential in correct description bond, discuss several examples systems whose geometrical features not captured easy-to-use predictive models.

Language: Английский

Citations

190

Recent developments in molecular docking technology applied in food science: a review DOI
Xuan Tao, Yukun Huang, Chong Wang

et al.

International Journal of Food Science & Technology, Journal Year: 2019, Volume and Issue: 55(1), P. 33 - 45

Published: Aug. 3, 2019

Summary Molecular docking is a theoretical simulation method based on bioinformatics, which studies the interaction between molecules (such as ligands and receptors), predicts their binding modes affinity via computer platform. This technology acts promising mean in medicinal chemistry such structure‐based rational drug design, accepted by researchers scientific community. During recent years, various fundamental involving biomolecular food matrix have gradually emerged. The remarkable advantages of molecular predicting experiments are attracting increasing attention for its application potential fields. review presents theory software development docking, emphasises field science, including nutritional components safety. Moreover, operational mechanisms further summarised this review.

Language: Английский

Citations

179

σ‐Hole Interactions in Catalysis DOI Creative Commons
Martin Breugst,

Jonas J. Koenig

European Journal of Organic Chemistry, Journal Year: 2020, Volume and Issue: 2020(34), P. 5473 - 5487

Published: June 8, 2020

Noncovalent interactions like halogen, chalcogen, and pnictogen bonding are known for a very long time. During the last decade, these have found different applications in catalysis. These forces often called σ‐hole which can be explained by anisotropic distribution of electron density around atoms. In this MiniReview, we will present recent catalysis discuss experimental computational investigations to gain more insights into underlying mechanisms.

Language: Английский

Citations

174

Transition Metal Catalysis Controlled by Hydrogen Bonding in the Second Coordination Sphere DOI Creative Commons
Joost N. H. Reek, Bas de Bruin,

Sonja Pullen

et al.

Chemical Reviews, Journal Year: 2022, Volume and Issue: 122(14), P. 12308 - 12369

Published: May 20, 2022

Transition metal catalysis is of utmost importance for the development sustainable processes in academia and industry. The activity selectivity complexes are typically result interplay between ligand properties. As can be chemically altered, a large research focus has been on development. More recently, it recognized that further control over achieved by using “second coordination sphere”, which seen as region beyond direct sphere center. Hydrogen bonds appear to very useful interactions this context they have sufficient strength directionality exert second sphere, yet hydrogen dynamic, allowing fast turnover. In review we highlighted several key features bonding summarized use program sphere. Such bridging two ligands coordinated center effectively lead supramolecular bidentate ligands. addition, used preorganize substrate Both strategies catalysts with superior properties variety catalyzed transformations, including (asymmetric) hydrogenation, hydroformylation, C–H activation, oxidation, radical-type photochemical reactions.

Language: Английский

Citations

131

Research advances of molecular docking and molecular dynamic simulation in recognizing interaction between muscle proteins and exogenous additives DOI

Genpeng Bai,

Yiling Pan, Yuemei Zhang

et al.

Food Chemistry, Journal Year: 2023, Volume and Issue: 429, P. 136836 - 136836

Published: July 8, 2023

Language: Английский

Citations

81

Insights into Ionic Liquids: From Z-Bonds to Quasi-Liquids DOI Creative Commons
Yanlei Wang, Hongyan He, Chenlu Wang

et al.

JACS Au, Journal Year: 2022, Volume and Issue: 2(3), P. 543 - 561

Published: Feb. 1, 2022

Ionic liquids (ILs) hold great promise in the fields of green chemistry, environmental science, and sustainable technology due to their unique properties, such as a tailorable structure, various types available, environmentally friendly features. On basis multiscale simulations experimental characterizations, two features ILs are follows: (1) strong coupling interactions between electrostatic forces hydrogen bonds, namely Z-bond, (2) semiordered structure properties ultrathin films, specifically regarding quasi-liquid. In accordance with aforementioned theoretical findings, many cutting-edge applications have been proposed: for example, CO2 capture conversion, biomass conversion utilization, energy storage materials. Although substantial progress has made recently field ILs, considerable challenges remain understanding nature devising especially terms e.g. situ/real-time observation highly precise Z-bond this Perspective, we review recent developments IL research community provide insights into function which will facilitate future applications.

Language: Английский

Citations

75

The Realm of Unconventional Noncovalent Interactions in Proteins: Their Significance in Structure and Function DOI Creative Commons
Vishal Annasaheb Adhav, K. Saikrishnan

ACS Omega, Journal Year: 2023, Volume and Issue: 8(25), P. 22268 - 22284

Published: June 13, 2023

Proteins and their assemblies are fundamental for living cells to function. Their complex three-dimensional architecture its stability attributed the combined effect of various noncovalent interactions. It is critical scrutinize these interactions understand role in energy landscape folding, catalysis, molecular recognition. This Review presents a comprehensive summary unconventional interactions, beyond conventional hydrogen bonds hydrophobic which have gained prominence over past decade. The discussed include low-barrier bonds, C5 C-H···π sulfur-mediated n → π* London dispersion halogen chalcogen tetrel bonds. focuses on chemical nature, interaction strength, geometrical parameters obtained from X-ray crystallography, spectroscopy, bioinformatics, computational chemistry. Also highlighted occurrence proteins or complexes recent advances made toward understanding biomolecular structure Probing diversity we determined that variable frequency ability synergize with one another important not only ab initio prediction but also design new functionalities. A better will promote utilization designing engineering ligands potential therapeutic value.

Language: Английский

Citations

61

Renewable energy driven electroreduction nitrate to ammonia and in-situ ammonia recovery via a flow-through coupled device DOI
Bing Zhou, Guangming Zhan, Yancai Yao

et al.

Water Research, Journal Year: 2023, Volume and Issue: 242, P. 120256 - 120256

Published: June 20, 2023

Language: Английский

Citations

57

Medium-pressure hydrogen storage on activated carbon derived from biomass conversion DOI Creative Commons
Jarosław Serafin, Bartosz Dziejarski, Carlos Solís Chacón

et al.

Fuel, Journal Year: 2024, Volume and Issue: 363, P. 130975 - 130975

Published: Jan. 21, 2024

Language: Английский

Citations

17