Article
Multidisciplinary Sciences
Anu Tyagi, Tofayel Ahmed, Shi Jian, Saumya Bajaj, Seow Theng Ong, Stephanie Shee Min Goay, Yue Zhao, Igor Vorobyov, Changlin Tian, K. George Chandy, Shashi Bhushan
Summary: This study reports two structures of the human voltage-gated potassium channel Kv1.3 – apo-Kv1.3 and dalazatide-Kv1.3. Both structures are in an activated state and show remarkable rearrangements in the selectivity filter. In apo-Kv1.3, the aromatic residue Y447 adopts a unique position diverging from other K+ channels, while in dalazatide-Kv1.3, binding of dalazatide narrows the selectivity filter and stabilizes Y447 in a position similar to other K+ channels. These structural changes play a crucial role in Kv1.3's transition into the drug-blocked state.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Review
Biochemistry & Molecular Biology
Janin Riedelsberger, Julia K. Miller, Braulio Valdebenito-Maturana, Miguel A. Pineros, Wendy Gonzalez, Ingo Dreyer
Summary: HKT channels are a plant protein family responsible for sodium and potassium uptake, as well as Na+-K+ homeostasis. They are divided into two classes based on sequence polymorphisms and play diverse roles in salt tolerance and potassium shortage responses in plants.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Chemistry, Physical
Hong Zhang, Yichang Guo, Christophe Chipot, Wensheng Cai, Xueguang Shao
Summary: By simulating the ion transport process in a membrane-spanning [2]rotaxane mechanism, we studied and elucidated the detailed mechanism, validating the reliability of our method and proposing a new pH-controlled nano-object that can assist in unidirectional ion transport across membranes.
JOURNAL OF PHYSICAL CHEMISTRY LETTERS
(2021)
Article
Multidisciplinary Sciences
Tobias Raisch, Andreas Brockmann, Ulrich Ebbinghaus-Kintscher, Jorg Freigang, Oliver Gutbrod, Jan Kubicek, Barbara Maertens, Oliver Hofnagel, Stefan Raunser
Summary: Slowpoke (Slo) potassium channels, which have high conductance and are activated by positive transmembrane potential and high intracellular Ca2+ concentrations, are targets for insecticides and antiparasitic drugs. The study presents cryo-EM structures of Drosophila Slo in Ca2+-bound and Ca2+-free forms, as well as in complex with fungal neurotoxin verruculogen and anthelmintic drug emodepside, revealing potential insect-specific binding pockets and mechanisms of action on Slo channel activity.
NATURE COMMUNICATIONS
(2021)
Article
Chemistry, Physical
Takumi Negoro, Keisuke Hirata, James M. Lisy, Shun-ichi Ishiuchi, Masaaki Fujii
Summary: Experimental and computational studies have shown that the presence of water molecules in potassium channels can affect ion selectivity and translocation processes.
PHYSICAL CHEMISTRY CHEMICAL PHYSICS
(2021)
Article
Biochemistry & Molecular Biology
Maria Lourdes Renart, Ana Marcela Giudici, Carlos Coll-Diez, Jose M. Gonzalez-Ros, Jose A. Poveda
Summary: In this study, we investigated the allosteric effect of an anionic phospholipid on the conformational equilibrium of the KcsA channel selectivity filter (SF). The anionic lipid specifically increased the affinity of the channel for K+ when the channel inner gate was open. This effect was specific to the anionic lipid and only observed at pH 4.0.
Article
Neurosciences
Kees McGahan, James Keener
Summary: Mechanistic mathematical modeling is used to describe cellular processes and understand ion channel kinetics. In this study, a novel mathematical model for heteromeric voltage gated potassium ion channels is presented. The model accurately captures the number and type of protein subunits in each channel. The model's validity is supported by comparing with experimental data and it is used to predict the effect of genetic mutations on channel formation.
FRONTIERS IN CELLULAR NEUROSCIENCE
(2022)
Article
Chemistry, Medicinal
Shijie Liu, Peipei Guo, Kun Wang, Shaoying Zhang, Ya Li, Juwen Shen, Lianghe Mei, Yangliang Ye, Qiansen Zhang, Huaiyu Yang
Summary: A ligand-to-ion activation mechanism was discovered for channels that bypasses their gates and is conserved across subfamilies with different gates.
JOURNAL OF MEDICINAL CHEMISTRY
(2022)
Review
Pharmacology & Pharmacy
Xiao-Yu Liu, Ling-Ling Qian, Ru-Xing Wang
Summary: This review summarizes the role of hydrogen sulfide (H2S) in the regulation of vascular tone, specifically through its interaction with different vascular potassium channels. Studies have shown that H2S plays a key role in the pathophysiology of vascular diseases and physiological vascular homeostasis.
FRONTIERS IN PHARMACOLOGY
(2022)
Article
Multidisciplinary Sciences
Linus J. Conrad, Peter Proks, Stephen J. Tucker
Summary: This passage discusses a voltage-dependent gating process in the TREK-2 K+ channel, which can be modulated by small molecule agonists and high internal K+ concentrations. It is found that high ionic-strength can inhibit the channel conductance, while the activatory effect of BL1249 on channel open probability persists under these conditions. The influence of negatively charged activators like BL1249 on permeation is consistent with an electrostatic mechanism, suggesting complexity in their effect on channel gating.
Article
Chemistry, Physical
Junben Weng, Anhui Wang, Dinglin Zhang, Chenyi Liao, Guohui Li
Summary: The study used an antiparallel alignment double bilayer model to investigate the movement and regulation of GIRK2 channels in different environments, revealing significant impacts of the binding of phosphatidylinositol-4,5-bisphosphate and G-protein beta gamma subunits on ion conduction and energy basis of the channel, as well as functional rocking motions of GIRK2 in a nonequilibrium environment.
PHYSICAL CHEMISTRY CHEMICAL PHYSICS
(2021)
Article
Multidisciplinary Sciences
Ahmed Rohaim, Bram J. A. Vermeulen, Jing Li, Felix Kummerer, Federico Napoli, Lydia Blachowicz, Joao Medeiros-Silva, Benoit Roux, Markus Weingarth
Summary: C-type inactivation is physiologically important in Kv channels, but its structural basis is not fully understood. Previous knowledge about C-type inactivation is mainly derived from the bacterial KcsA channel, which has a different molecular environment compared to Kv channels. This study investigates a KcsA mutant that resembles Kv channels and reveals a distinct mechanism for C-type inactivation.
NATURE COMMUNICATIONS
(2022)
Article
Physiology
Tobias S. Gabriel, Ulf-Peter Hansen, Martin Urban, Nils Drexler, Tobias Winterstein, Oliver Rauh, Gerhard Thiel, Stefan M. Kast, Indra Schroeder
Summary: The study investigates the relationship between ions in the selectivity filter of K+ channels and the release kinetics of a blocker, revealing that K+ occupation probability is unaffected by the blocker due to ion-carbonyl attraction. The model derived from data and calculations shows that the blocker release kinetics in Kcv(NTS) channels can be reduced to a small number of system-specific parameters.
FRONTIERS IN PHYSIOLOGY
(2021)
Article
Chemistry, Multidisciplinary
Hongxiang Wu, Zhenquan Sun, Xuechen Li
Summary: In this study, we introduced N,O-benzylidene acetal dipeptides (NBDs) as robust and effective building blocks for the direct synthesis of difficult peptides and proteins. The versatility of NBDs was demonstrated in the successful synthesis of various challenging peptides and proteins, including chemokine, therapeutic hormones, histone, and glycosylated erythropoietin.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2023)
Article
Chemistry, Physical
Hon Lin Too, Na Guo, Chun Zhang, Zhisong Wang
Summary: DFT-based first-principles calculations were performed to investigate the adsorption difference of a backbone-free nucleobase, a backbone-containing Na counterion nucleotide, and a backbone-containing H counterion nucleotide on 2D materials. It was found that the inclusion of a sugar-phosphate backbone alters the electronic affinity of nucleobases and the backbone should be considered in the study of DNA nucleobase adsorption. It was also demonstrated that the H counterion model is superior to the Na counterion model in terms of adsorption on 2D materials.
JOURNAL OF PHYSICAL CHEMISTRY B
(2022)
Article
Chemistry, Multidisciplinary
M. Harunur Rashid, Germano Heinzelmann, Serdar Kuyucak
JOURNAL OF THEORETICAL & COMPUTATIONAL CHEMISTRY
(2015)
Review
Biology
Lewis Martin, Marcela M. Bilek, Anthony S. Weiss, Serdar Kuyucak
Article
Biochemistry & Molecular Biology
Dharmeshkumar Patel, Somayeh Mahdavi, Serdar Kuyucak
Article
Chemistry, Physical
Jeffry Setiadi, Serdar Kuyucak
JOURNAL OF PHYSICAL CHEMISTRY B
(2017)
Review
Neurosciences
Andrew Hung, Serdar Kuyucak, Christina I. Schroeder, Quentin Kaas
Article
Multidisciplinary Sciences
Dharmeshkumar Patel, Serdar Kuyucak
Review
Biochemistry & Molecular Biology
Serdar Kuyucak, Veysel Kayser
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL
(2017)
Article
Multidisciplinary Sciences
Anastasios Papaioannou, Serdar Kuyucak, Zdenka Kuncic
Article
Chemistry, Physical
Jeffry Setiadi, Serdar Kuyucak
JOURNAL OF CHEMICAL PHYSICS
(2019)
Article
Biophysics
Jeffry Setiadi, Serdar Kuyucak
BIOPHYSICAL JOURNAL
(2019)
Article
Chemistry, Multidisciplinary
Md Harunur Rashid, Serdar Kuyucak
Meeting Abstract
Biophysics
Esra Korpe, Ali Osman Acar, Murat Cavus, Serdar Kuyucak, Turgut Bastug
BIOPHYSICAL JOURNAL
(2017)
Meeting Abstract
Biophysics
Ali O. Acar, Esra Korpe, Murat Cavus, Serdar Kuyucak, Turgut Bastug
BIOPHYSICAL JOURNAL
(2017)
Article
Biochemistry & Molecular Biology
Jeffry Setiadi, Serdar Kuyucak
Review
Biochemistry & Molecular Biology
Jeffry Setiadi, Germano Heinzelmann, Serdar Kuyucak