98%
921
2 minutes
20
Conjugated polymers (CPs) enable a wide range of lightweight, lower cost, and flexible organic electronic devices, but a thorough understanding of relationships between molecular structure and dynamics and electronic performance is critical for improved device efficiencies and for new technologies. Molecular dynamics (MD) simulations offer insight into this relationship, but their accuracy relies on the approach used to develop the model's parameters or force field (FF). In this Perspective, we first review current FFs for CPs and find that most of the models implement an arduous reparameterization of inter-ring torsion potentials and partial charges of classical FFs. However, there are few FFs outside of simple CP molecules, e.g., polythiophenes, that have been developed over the last two decades. There is also limited reparameterization of other parameters, such as nonbonded Lennard-Jones interactions, which we find to be directly influenced by conjugation in these materials. We further provide a discussion on experimental validation of MD FFs, with emphasis on neutron and X-ray scattering. We define multiple ways in which various scattering methods can be directly compared to results of MD simulations, providing a powerful experimental validation metric of local structure and dynamics at relevant length and time scales to charge transport mechanisms in CPs. Finally, we offer a perspective on the use of neutron scattering with machine learning to enable high-throughput parametrization of accurate and experimentally validated CP FFs enabled not only by the ongoing advancements in computational chemistry, data science, and high-performance computing but also using oligomers as proxies for longer polymer chains during FF development.
Download full-text PDF |
Source |
---|---|
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9954299 | PMC |
http://dx.doi.org/10.1021/acspolymersau.1c00027 | DOI Listing |
Biochem J
September 2025
Department of Biological Sciences, Indian Institute of Science Education and Research Kolkata, Mohanpur Campus, Mohanpur, 741246 Nadia, West Bengal, India.
Transcription initiation factor TFIID subunit 1 (TAF1) is a pivotal component of the TFIID complex, critical for RNA polymerase II-mediated transcription initiation. However, the molecular basis by which TAF1 recognizes and associates with chromatin remains incompletely understood. Here, we report that the tandem bromodomain module of TAF1 engages nucleosomal DNA through a distinct positively charged surface patch on the first bromodomain (BD1).
View Article and Find Full Text PDFVet Res Commun
September 2025
College of Veterinary Medicine, Vietnam National University of Agriculture, 100000, Hanoi, Vietnam.
African swine fever (ASF) is a contagious viral disease that affects domestic pigs and Eurasian wild boars, causing significant economic losses to the global pig industry. Since its first outbreak in February 2019, ASF has had a profound impact on the Vietnamese pig sector. This review presents a comprehensive analysis of ASF outbreaks in Vietnam from 2019 to 2024, focusing on outbreak dynamics, control strategies, economic impact, and key lessons learned.
View Article and Find Full Text PDFMol Divers
September 2025
Department of Pharmacognosy, College of Pharmacy, Prince Sattam Bin Abdulaziz University, 11942, Al Kharj, Saudi Arabia.
Cyclin-dependent kinase 20 (CDK20), also known as cell cycle-related kinase (CCRK), plays a pivotal role in hepatocellular carcinoma (HCC) progression by regulating β-catenin signaling and promoting uncontrolled proliferation. Despite its emerging significance, selective small-molecule inhibitors of CDK20 remain unexplored. In this study, a known CDK20 inhibitor, ISM042-2-048, was employed as a reference to retrieve structurally similar compounds from the PubChem database using an 85% similarity threshold.
View Article and Find Full Text PDFMol Divers
September 2025
State Key Laboratory Basis of Xinjiang Indigenous Medicinal Plants Resource Utilization, Xinjiang Technical Institute of Physics and Chemistry, Chinese Academy of Sciences, Urumqi, 830011, Xinjiang, China.
Aurora kinases are a group of serine/threonine kinases essential for cell mitosis, comprising Aurora A, B, and C. However, the Aurora B is overexpressed in multiple tumors and the aurone has been proved to exhibit potent inhibitory activity against Aurora B kinase by our group. The indolinone was considered as an aurone scaffold hopping analog, and the indolinone-based Aurora B inhibitor library (3577 molecules) was constructed by FBDD strategy.
View Article and Find Full Text PDFJ Math Biol
September 2025
Department of Mathematics, University of Illinois Urbana-Champaign, Urbana, USA.
A fundamental question in the field of molecular computation is what computational tasks a biochemical system can carry out. In this work, we focus on the problem of finding the maximum likelihood estimate (MLE) for log-affine models. We revisit a construction due to Gopalkrishnan of a mass-action system with the MLE as its unique positive steady state, which is based on choosing a basis for the kernel of the design matrix of the model.
View Article and Find Full Text PDF