Article
Multidisciplinary Sciences
Ravikumar Reddi, Kimberly Matulef, Erika A. Riederer, Matthew R. Whorton, Francis Valiyaveetil
Summary: This study presents the crystal structure of the K(v)1.2 channel in a C-type inactivated state, revealing changes in the selectivity filter that disrupt ion binding sites and propagate to the extracellular mouth and turret regions of the channel pore. The findings highlight the importance of the interplay between ion occupancy at the binding sites and the selectivity filter in regulating the conductive and inactivated conformations of the channel.
Article
Chemistry, Multidisciplinary
Yan Zhang, Yongsheng Yang, Ying Xue
Summary: This paper presents a systematic DFT study on the cyclization reaction catalyzed by Rh-2(esp)(2) and InCl3 to generate bioactive polycyclic indolines. The computational results reveal the reaction mechanisms and the role of catalysts in controlling regio- and diastereo-selectivity. The study highlights the significance of catalysts in the reaction system and offers a theoretical explanation for experimental observations.
Article
Pathology
Tracie Cheng, Sujani Madhurika Kodagoda Gamage, Cu-Tai Lu, Sharmin Aktar, Vinod Gopalan, Alfred King-yin Lam
Summary: This study found that polymorphisms at exon 7 of CYP1A1 are present in patients with colorectal carcinoma (CRC) and are associated with several clinicopathological characteristics, such as age and perineural cancer infiltration.
PATHOLOGY RESEARCH AND PRACTICE
(2022)
Article
Biochemistry & Molecular Biology
Nazzareno D'Avanzo, Andrew J. Miles, Andrew M. Powl, Colin G. Nichols, B. A. Wallace, Andrias O. O'Reilly
Summary: Cytoplasmic domains often play a role in the functional assembly of multimeric ion channels. The study shows that bringing the transmembrane regions into close proximity enables their tetramerisation, which is a common assembly mechanism among different channels.
Article
Biology
Hirohide Takahashi, Toshiki Yamada, Jerod S. Denton, Kevin Strange, Erkan Karakas
Summary: Volume-regulated anion channels (VRACs) mediate volume regulation and solute efflux from cells, but their composition and structure remain unclear. In this study, the authors developed novel homomeric LRRC8 chimeric channels that mimic native VRACs. They found that the LRRC8C-LRRC8A(IL1(25)) chimera has a seven-subunit structure, a large pore size, and normal pharmacology compared to non-functional homomeric channels. Lipid-like densities were also observed in the channel, suggesting a role in gating and regulation.
Article
Food Science & Technology
Hyunki Cho, Ian Choi, Sang Kyum Kim, Seungyun Baik, Chang Seon Ryu
Summary: This study aimed to develop a LC-MS/MS-based assay to evaluate the induction potential of CYP1A1 following exposure to particulate matter (PM). The assay showed high selectivity for CYP1A1 and strong correlation with AhR activation and CYP1A1 mRNA levels.
FOOD AND CHEMICAL TOXICOLOGY
(2022)
Article
Environmental Sciences
Chao Chen, Di Zhang, Anjie Yuan, Jiemiao Shen, Li Wang, Shou-Lin Wang
Summary: Cytochrome P450 1A1 (CYP1A1) plays a critical role in the toxicity of polycyclic aromatic hydrocarbons (PAHs). The 7-ethoxyresorufin-O-deethylase (EROD) assay, which quantifies CYP1A1 activity, is considered a typical biomarker for PAH exposure and toxicity. This study presents a novel curve fitting formula for the EROD dose-response relationship and a prediction model for PAH EROD potency.
SCIENCE OF THE TOTAL ENVIRONMENT
(2022)
Article
Neurosciences
I-Shan Chen, Jodene Eldstrom, David Fedida, Yoshihiro Kubo
Summary: G-protein-gated inwardly rectifying K+ (GIRK; Kir3.x) channels play important roles in controlling cell excitation in various organs. Disease-associated mutations in these channels can lead to loss of K+ selectivity, with the G156S mutation showing a unique ion permeation pathway compared to other mutants.
JOURNAL OF PHYSIOLOGY-LONDON
(2022)
Article
Multidisciplinary Sciences
Ada Y. Chen, Bernard R. Brooks, Ana Damjanovic
Summary: In bacterial voltage-gated sodium channels, the passage of ions through the pore is controlled by a selectivity filter (SF) composed of four glutamate residues. This study proposes an alternative mechanism for selectivity, based on ion-triggered shifts in pKa values of SF glutamates. The mechanism suggests that selectivity is achieved through ion-triggered shifts in the protonation state, favoring more conductive states for Na+ ions and less conductive states for K+ ions.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Article
Physics, Fluids & Plasmas
J. B. Sokoloff, A. W. C. Lau
Summary: A simple model is studied to describe the friction experienced by one-dimensional water chains flowing through sub-nanometer diameter carbon nanotubes. The model relies on perturbation theory to analyze the friction caused by phonon and electron excitations in both the nanotube and the water chain. Based on this model, the observed flow velocities of water chains in carbon nanotubes can be explained.
Article
Multidisciplinary Sciences
Sindre W. Haugland, Anton Tosolini, Katharina Krischer
Summary: The text explores the behaviors of coupled oscillators, including synchronization and incoherence, as well as the discovery of "chimera states" and their relationship with synchronization and asynchronization. It demonstrates that globally coupled identical oscillators can express a wider range of coexistence patterns, including chimeras.
NATURE COMMUNICATIONS
(2021)
Article
Physics, Multidisciplinary
Nikita P. Kryuchkov, Vladimir N. Mantsevich, Stanislav O. Yurchenko
Summary: This study numerically and analytically investigates the spectra of two harmonic oscillators with stochastically fluctuating coupling and driving forces, showing that the oscillation spectra exhibit mixing even at small coupling.
PHYSICAL REVIEW LETTERS
(2022)
Article
Physics, Multidisciplinary
Rok Cestnik, Arkady Pikovsky
Summary: We study the collective behavior of phase oscillators in the thermodynamic limit and propose an Ansatz for the circular moments of the distribution that allows for truncation at any number of modes. By simulating a Josephson junction array, we demonstrate the higher-dimensional behavior facilitated by dynamics on extended manifolds.
PHYSICAL REVIEW LETTERS
(2022)
Article
Multidisciplinary Sciences
Weichao Peng, Shuaihu Yan, Ke Zhou, Hai-Chen Wu, Lei Liu, Yuliang Zhao
Summary: By using a modified density gradient ultracentrifugation method, ultrashort single-walled carbon nanotubes (SWCNTs) with a narrow conductance range can be separated and inserted into lipid bilayers to construct high-resolution nanopore sensors. These SWCNT nanopores exhibit 3-5 times higher ion mobility compared to bulk mobility, and are capable of discriminating homologous and isomeric proteinogenic amino acids, which is challenging for other types of nanopore sensors. These findings hold great importance for the development of protein sequencing technologies.
NATURE COMMUNICATIONS
(2023)
Article
Multidisciplinary Sciences
Mingfeng Zhang, Yuanyue Shan, Duanqing Pei
Summary: Human Eag2 is a voltage-gated potassium channel that exhibits unique delayed rectifying gating kinetics. In this study, the authors elucidate the mechanism of how voltage opens the channel and sheds light on delayed rectifier gating. They use cryo-electron microscopy to capture multiple conformations of hEag2, revealing the dynamics of the selectivity filter and ion permeation pathway at the atomic level. The study also uncovers the involvement of the S4-S5 linker and an additional potassium ion in voltage transduction and the generation of delayed rectifier properties.
NATURE COMMUNICATIONS
(2023)
Review
Biochemistry & Molecular Biology
Philippe Urban, Thomas Lautier, Denis Pompon, Gilles Truan
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2018)
Correction
Pharmacology & Pharmacy
Diana Campelo, Thomas Lautier, Philippe Urban, Francisco Esteves, Sophie Bozonnet, Gilles Truan, Michel Kranendonk
FRONTIERS IN PHARMACOLOGY
(2018)
Article
Pharmacology & Pharmacy
Francisco Esteves, Diana Campelo, Philippe Urban, Sophie Bozonnet, Thomas Lautier, Jose Rueff, Gilles Truan, Michel Kranendonk
BIOCHEMICAL PHARMACOLOGY
(2018)
Article
Biochemistry & Molecular Biology
Robert B. Quast, Fataneh Fatemi, Michel Kranendonk, Emmanuel Margeat, Gilles Truan
Article
Biochemistry & Molecular Biology
Diana Campelo, Francisco Esteves, Bernardo Brito Palma, Bruno Costa Gomes, Jose Rueff, Thomas Lautier, Philippe Urban, Gilles Truan, Michel Kranendonk
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2018)
Article
Biotechnology & Applied Microbiology
Phawadee Buathong, Nassapat Boonvitthy, Gilles Truan, Warawut Chulalaksananukul
INTERNATIONAL BIODETERIORATION & BIODEGRADATION
(2019)
Article
Endocrinology & Metabolism
Sara Castano-Cerezo, Hanna Kulyk-Barbier, Pierre Millard, Jean-Charles Portais, Stephanie Heux, Gilles Truan, Floriant Bellvert
Article
Biochemical Research Methods
Arthur Sarrade-Loucheur, Dae-Kyun Ro, Regis Faure, Magali Remaud-Simeon, Gilles Truan
ACS SYNTHETIC BIOLOGY
(2020)
Article
Biochemistry & Molecular Biology
Francisco Esteves, Philippe Urban, Jose Rueff, Gilles Truan, Michel Kranendonk
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2020)
Article
Multidisciplinary Sciences
Philippe Urban, Denis Pompon
Summary: Conformational dynamics is crucial for the function of multidomain electron transfer complexes. Cryo-electron microscopy provides more information on dynamics compared to crystallographic or NMR approaches. AlphaFold has successfully predicted protein complexes, but its ability to address large conformational changes involved in catalysis has been unclear. In this study, a competitive modelling approach (CMA) was used to assess alternate conformations of the bacterial CYP102A1 monooxygenase homodimer. The predictions were compared to crystallographic and cryo-EM data, showing consistencies and allowing reinterpretation of experimental data.
SCIENTIFIC REPORTS
(2022)
Article
Biochemistry & Molecular Biology
Francisco Esteves, Cristina M. M. Almeida, Sofia Silva, Ines Saldanha, Philippe Urban, Jose Rueff, Denis Pompon, Gilles Truan, Michel Kranendonk
Summary: A unique cytochrome P450 (CYP) oxidoreductase (CPR) is important for maintaining the activities of human microsomal CYPs. The conformation of the CPR protein influences electron transfers and complex formation with CYPs. Mutations in the hinge region and FD domain of CPR can modulate CYP activities and regiospecificity of reactions in a substrate-dependent manner.
Article
Materials Science, Multidisciplinary
Simon Raffy, Etienne Palleau, Brice Calvignac, Guillaume Brotons, Guillaume Lefebvre, Nicolas Rolley, Sebastien Teychene, Bernard Viguier, Sara Castano Cerezo, Gilles Truan, Laurence Ressier
Summary: The choice of materials in chip fabrication for microfluidics is crucial, and this study proposes a versatile approach using a combination of epoxy materials to fabricate microfluidic chips with various potentialities. The chips demonstrate good chemical resistance, optical transparency, biocompatibility, high pressure capability, and integration of high aspect ratio channels, making them promising for prototyping in a wide range of applications and fundamental studies.
ACS APPLIED POLYMER MATERIALS
(2021)
Review
Biotechnology & Applied Microbiology
Sylvain Pouzet, Alvaro Banderas, Matthias Le Bec, Thomas Lautier, Gilles Truan, Pascal Hersen
BIOENGINEERING-BASEL
(2020)
Article
Biochemistry & Molecular Biology
A. Prabakaran, Amit Alexander
Summary: The molecular interactions and mucoadhesive nature of chitosan-coated liposomes with mucin are crucial for the development of an effective drug delivery system. The positively charged SA-CH-LPs showed stronger interaction and better mucoadhesive properties compared to negatively charged SALPs, thereby improving drug retention in the nasal cavity and enhancing therapeutic efficacy.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2024)
Article
Biochemistry & Molecular Biology
Maryam Noei-Khesht Masjedi, Esmaeil Sadroddiny, Jafar Ai, Saeed Balalaie, Yazdan Asgari
Summary: This study discovered an effective strategy for cargo sorting within exosomes by incorporating an appropriate cleavage site, providing further insight into the potential of exosomes as nano-shuttles bearing therapeutic biomolecules.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2024)
Article
Biochemistry & Molecular Biology
Pei -Gee Yap, Chee-Yuen Gan
Summary: This study collected the sequences of 128 tyrosinase inhibitory peptides and analyzed their hydrophobicity/hydrophilicity properties and amino acid profiles. Molecular docking analysis was used to investigate the binding interactions between peptides and tyrosinase. The study found that hydrophobic and/or polar neutral properties facilitate or stabilize peptide binding with tyrosinase, and short peptides with cysteine and tyrosine tend to bind to the active site of tyrosinase. These findings provide detailed explanations for the relationship between peptide/amino acid structures and tyrosinase inhibition, as well as potential anti-melanogenesis mechanisms for peptide-based treatments against skin hyperpigmentation.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2024)
Article
Biochemistry & Molecular Biology
Ye Yang, Hai-Lian Chen, Su Fang Wu, Wei Bao
Summary: The study found that CHMP4B and VPS4A play an important role in reversing GSDMD-mediated pyroptosis by facilitating cell membrane remodeling in endometrial carcinoma.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2024)
Article
Biochemistry & Molecular Biology
Aya Al Othman, Dmitry Bagrov, Julian M. Rozenberg, Olga Glazova, Gleb Skryabin, Elena Tchevkina, Alexandre Mezentsev, Mikhail Durymanov
Summary: Arc protein is found in glutamatergic neurons of vertebrates and can be transferred between neurons in extracellular vesicles (EVs). In glioma cells, Arc protein is also present in EVs and can facilitate the transfer of mRNA, potentially contributing to tumor progression and affecting synaptic plasticity in cancer patients.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2024)
Article
Biochemistry & Molecular Biology
Nan Zhang, Meng-yu Shen, Qing-li Meng, Hao-ping Sun, Fang-yi Fan, Hai Yi, Yong-jian Yang
Summary: In this study, it was demonstrated for the first time that FAT1 inhibited AML proliferation by reducing autophagy level. FAT1 achieved this by decreasing the expression of ATG4B, which is related to autophagy. Mechanistically, FAT1 decreased the levels of phosphorylated and intranuclear smad2/3, thus decreasing the activity of the ATG4B gene promoter. It was also found that FAT1 competitively bound to TGF-beta R II, leading to reduced phosphorylation of TGF-beta R I and smad2/3. Knockdown of FAT1 promoted AML autophagy and proliferation in vivo.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2024)
Article
Biochemistry & Molecular Biology
Oleh Demianchuk, Myroslava Vatashchuk, Dmytro Gospodaryov, Viktoria Hurza, Marian Ivanochko, Vitalii Derkachov, Vladyslav Berezovskyi, Oleh Lushchak, Kenneth B. Storey, Maria Bayliak, Volodymyr I. Lushchak
Summary: This study investigated the effects of a high-fat high-fructose diet (HFFD) on the behavior, energy metabolism, and oxidative stress markers in the cerebral cortex of mice. The results showed that HFFD stimulated locomotion and defecation, while an AKG-supplemented diet had a tendency to promote anxiety-like behavior. Additionally, there were significant differences in glutathione-dependent detoxification and processes related to autophagy between the two diets.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2024)
Article
Biochemistry & Molecular Biology
Yusaku Chukai, Ginga Ito, Yasuo Miki, Koichi Wakabayashi, Ken Itoh, Eriko Sugano, Hiroshi Tomita, Tomokazu Fukuda, Taku Ozaki
Summary: The study found that mitochondrial calpain-5 plays an important role in the occurrence and development of ischemia-reperfusion injury and is expressed in the human and mouse brains. Targeting the expression or activity of mitochondrial calpain-5 may have significant implications for suppressing inflammation during I/R injuries such as cerebrovascular diseases.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2024)
Article
Biochemistry & Molecular Biology
Aline Dias da Purificaca, Victor Debbas, Leonardo Yuji Tanaka, Gabriele Veronica de Mello Gabriel, Joao Wosniak Junior, Tiphany Coralie De Bessa, Sheila Garcia-Rosa, Francisco Rafael Martins Laurindo, Percillia Victoria Santos Oliveira
Summary: The ER transmembrane chaperones DNAJB12 and DNAJB14 play important roles in protein folding and ER stress response. They are regulated by thiol redox processes and are involved in ER protein reflux.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2024)
Article
Biochemistry & Molecular Biology
Ekaterina O. Bryanskaya, Andrey Y. Vinokurov, Angelina I. Dolgikh, Andrey Dunaev, Plamena R. Angelova, Andrey Y. Abramov
Summary: FAD autofluorescence in cells can assess enzymatic activity, and its intensity variations may be related to different cell types and tissues. High levels of FAD autofluorescence can indicate cell pathology and potentially predict the occurrence of apoptosis and necrosis.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2024)
Article
Biochemistry & Molecular Biology
Rumei Luan, Manyu Luo, Dongyan Ding, Xin Su, Junling Yang
Summary: Zinc deficiency can worsen obesity-related lung damage, and Nrf2 activation is one of the important mechanisms of this protective effect. Regulating zinc homeostasis can contribute to the prevention and treatment of obesity-related lung injury.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2024)