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Molecular basis of proteolytic cleavage regulation by the extracellular matrix receptor dystroglycan Structure (IF 4.4) Pub Date : 2024-09-20 Michael J.M. Anderson, Amanda N. Hayward, Adam T. Smiley, Ke Shi, Matthew R. Pawlak, Eric J. Aird, Eva Grant, Lauren Greenberg, Hideki Aihara, Robert L. Evans, Christopher Ulens, Wendy R. Gordon
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Utilizing anomalous signals for element identification in macromolecular crystallography. Acta Cryst. D (IF 2.6) Pub Date : 2024-10-01 Kamel El Omari,Ismay Forsyth,Ramona Duman,Christian M Orr,Vitaliy Mykhaylyk,Erika J Mancini,Armin Wagner
AlphaFold2 has revolutionized structural biology by offering unparalleled accuracy in predicting protein structures. Traditional methods for determining protein structures, such as X-ray crystallography and cryo-electron microscopy, are often time-consuming and resource-intensive. AlphaFold2 provides models that are valuable for molecular replacement, aiding in model building and docking into electron
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The human touch: Utilizing AlphaFold 3 to analyze structures of endogenous metabolons Structure (IF 4.4) Pub Date : 2024-09-19 Toni K. Träger, Christian Tüting, Panagiotis L. Kastritis
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Catalytic and noncatalytic functions of DNA polymerase κ in translesion DNA synthesis Nat. Struct. Mol. Biol. (IF 12.5) Pub Date : 2024-09-19 Selene Sellés-Baiget, Sara M. Ambjørn, Alberto Carli, Ivo A. Hendriks, Irene Gallina, Norman E. Davey, Bente Benedict, Alessandra Zarantonello, Sampath A. Gadi, Bob Meeusen, Emil P. T. Hertz, Laura Slappendel, Daniel Semlow, Shana Sturla, Michael L. Nielsen, Jakob Nilsson, Thomas C. R. Miller, Julien P. Duxin
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Publisher Correction: Structural basis of LRPPRC-SLIRP-dependent translation by the mitoribosome. Nat. Struct. Mol. Biol. (IF 12.5) Pub Date : 2024-09-19 Vivek Singh,J Conor Moran,Yuzuru Itoh,Iliana C Soto,Flavia Fontanesi,Mary Couvillion,Martijn A Huynen,L Stirling Churchman,Antoni Barrientos,Alexey Amunts
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Lys716 in the transmembrane domain of yeast mitofusin Fzo1 modulates anchoring and fusion Structure (IF 4.4) Pub Date : 2024-09-18 Raphaëlle Versini, Marc Baaden, Laetitia Cavellini, Mickaël M. Cohen, Antoine Taly, Patrick F.J. Fuchs
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AlphaFold with conformational sampling reveals the structural landscape of homorepeats Structure (IF 4.4) Pub Date : 2024-09-18 David Fernandez Bonet, Shahrayar Ranyai, Luay Aswad, David P. Lane, Marie Arsenian-Henriksson, Michael Landreh, Dilraj Lama
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The future of integrated structural biology Structure (IF 4.4) Pub Date : 2024-09-17 Harald Schwalbe, Pauline Audergon, Natalie Haley, Claudia Alen Amaro, Jon Agirre, Marc Baldus, Lucia Banci, Wolfgang Baumeister, Martin Blackledge, Jose Maria Carazo, Kristina Djinovic Carugo, Patrick Celie, Isabella Felli, Darren J. Hart, Thomas Hauß, Lari Lehtiö, Kresten Lindorff-Larsen, José Márquez, André Matagne, Roberta Pierattelli, Matthias Wilmanns
Instruct-ERIC, “the European Research Infrastructure Consortium for Structural biology research,” is a pan-European distributed research infrastructure making high-end technologies and methods in structural biology available to users. Here, we describe the current state-of-the-art of integrated structural biology and discuss potential future scientific developments as an impulse for the scientific
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Structural characterization of the POTRA domains from A. baumannii reveals new conformations in BamA Structure (IF 4.4) Pub Date : 2024-09-17 Claire Overly Cottom, Robert Stephenson, Dante Ricci, Lixinhao Yang, James C. Gumbart, Nicholas Noinaj
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Structural basis for translational control by the human 48S initiation complex Nat. Struct. Mol. Biol. (IF 12.5) Pub Date : 2024-09-17 Valentyn Petrychenko, Sung-Hui Yi, David Liedtke, Bee-Zen Peng, Marina V. Rodnina, Niels Fischer
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Lipid Redistribution due to a Cell-Cell Fusion Pore. Biophys. J. (IF 3.2) Pub Date : 2024-09-17 David William Allender,Michael Schick
We consider the redistribution of lipids comprising the plasma membranes during cell-cell fusion, particularly due to the presence of a fusion pore. Assuming the membranes are of constant thickness, we find that the mole fraction of cholesterol increases in the directly apposed exoplasmic leaflets, and is decreased in the cytoplasmic leaflets. The redistribution of the phospholipids is obtained as
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Mixed-scale versus multiscale models of muscle contraction. Biophys. J. (IF 3.2) Pub Date : 2024-09-17 Josh E Baker
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Rewiring protein binding specificity in paralogous DRG/DFRP complexes Structure (IF 4.4) Pub Date : 2024-09-13 Christian A.E. Westrip, Stephen J. Smerdon, Mathew L. Coleman
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Structural organization of pyruvate: ferredoxin oxidoreductase from the methanogenic archaeon Methanosarcina acetivorans Structure (IF 4.4) Pub Date : 2024-09-11 Matteo Cossu, Daniel Catlin, Sean J. Elliott, William W. Metcalf, Satish K. Nair
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Unraveling the Hydration Dynamics of the ACC1-13K24-ATP System: From Liquid-to-Droplet to-Amyloid Fibril. Biophys. J. (IF 3.2) Pub Date : 2024-09-11 Sampad Bag,Robert Dec,Simone Pezzotti,Rudhi Ranjan Sahoo,Gerhard Schwaab,Roland Winter,Martina Havenith
In order to achieve a comprehensive understanding of protein aggregation processes, an exploration of solvation dynamics, a key yet intricate component of biological phenomena, is mandatory. In the present study, we used Fourier Transform Infrared Spectroscopy (FT-IR) and Terahertz(THz)-spectroscopy complemented by Atomic Force Microscopy and kinetic experiments utilizing Thioflavin T (ThT) fluorescence
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Blocking uncertain mispriming errors of PCR Biophys. J. (IF 3.2) Pub Date : 2024-09-10 Takumi Takahashi, Hiroyuki Aoyanagi, Simone Pigolotti, Shoichi Toyabe
The polymerase chain reaction (PCR) plays a central role in genetic engineering and is routinely used in various applications, from biological and medical research to the diagnosis of viral infections. PCR is an extremely sensitive method for detecting target DNA sequences, but it is substantially error prone. In particular, the mishybridization of primers to contaminating sequences can result in false
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Resistance of estrogen receptor function to BET bromodomain inhibition is mediated by transcriptional coactivator cooperativity Nat. Struct. Mol. Biol. (IF 12.5) Pub Date : 2024-09-09 Sicong Zhang, Robert G. Roeder
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Author Correction: Unwinding of a eukaryotic origin of replication visualized by cryo-EM. Nat. Struct. Mol. Biol. (IF 12.5) Pub Date : 2024-09-09 Sarah S Henrikus,Marta H Gross,Oliver Willhoft,Thomas Pühringer,Jacob S Lewis,Allison W McClure,Julia F Greiwe,Giacomo Palm,Andrea Nans,John F X Diffley,Alessandro Costa
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Exocyst stimulates multiple steps of exocytic SNARE complex assembly and vesicle fusion Nat. Struct. Mol. Biol. (IF 12.5) Pub Date : 2024-09-06 Chanwoo Lee, Dante Lepore, Seung-Hak Lee, Tae Gyun Kim, Natasha Buwa, Jongchan Lee, Mary Munson, Tae-Young Yoon
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Distinct stabilization of the human T cell leukemia virus type 1 immature Gag lattice Nat. Struct. Mol. Biol. (IF 12.5) Pub Date : 2024-09-06 Martin Obr, Mathias Percipalle, Darya Chernikova, Huixin Yang, Andreas Thader, Gergely Pinke, Dario Porley, Louis M. Mansky, Robert A. Dick, Florian K. M. Schur
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Pseudouridine guides germline small RNA transport and epigenetic inheritance Nat. Struct. Mol. Biol. (IF 12.5) Pub Date : 2024-09-06 Rowan P. Herridge, Jakub Dolata, Valentina Migliori, Cristiane de Santis Alves, Filipe Borges, Andrea J. Schorn, Frédéric van Ex, Ann Lin, Mateusz Bajczyk, Jean-Sebastien Parent, Tommaso Leonardi, Alan Hendrick, Tony Kouzarides, Robert A. Martienssen
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Cracking under stress: How actin might turn failure into action Biophys. J. (IF 3.2) Pub Date : 2024-09-06 Ulrich S. Schwarz
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Neural control and innate self-tuning of the hair cell’s active process Biophys. J. (IF 3.2) Pub Date : 2024-09-06 Charles Metzler-Winslow, Martín A. Toderi, Dolores Bozovic
We propose a model for the feedback control processes that underlie the robustness and high sensitivity of mechanosensory hair cells. Our model encompasses self-tuning active processes intrinsic to these cells, which drive the amplification of mechanical stimuli by consuming metabolic energy, and a neural input process that protects these cells from damage caused by powerful stimuli. We explore the
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RNA dynamics from experimental and computational approaches Structure (IF 4.4) Pub Date : 2024-09-05 Giovanni Bussi, Massimiliano Bonomi, Paraskevi Gkeka, Michael Sattler, Hashim M. Al-Hashimi, Pascal Auffinger, Maria Duca, Yann Foricher, Danny Incarnato, Alisha N. Jones, Serdal Kirmizialtin, Miroslav Krepl, Modesto Orozco, Giulia Palermo, Samuela Pasquali, Loïc Salmon, Harald Schwalbe, Eric Westhof, Martin Zacharias
Conformational dynamics is crucial for the biological function of RNA molecules and for their potential as therapeutic targets. This meeting report outlines key “take-home” messages that emerged from the presentations and discussions during the CECAM workshop “RNA dynamics from experimental and computational approaches” in Paris, June 26–28, 2023.
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Ordering the disordered Structure (IF 4.4) Pub Date : 2024-09-05 Sarah Shammas, Gabriella Heller, Alaji Bah, Emmanouela Filippidi, Alex Holehouse, Miao Yu, Janin Lautenschläger
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Expanding the insect defensin landscape Structure (IF 4.4) Pub Date : 2024-09-05 Krishnakoli Adhikary, Sébastien F. Poget
In this issue of Structure, Walker et al.1 determined the NMR structure of a recently discovered defensin, Pp19, from the venom of an assassin bug. This peptide adopts an α-defensin-like structure, which had not been observed in insects before. Unlike mammalian α-defensins, which are generally antimicrobial, Pp19 has insecticidal activity.
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Ping, pong, and freeze: Structural insights into the inhibition of ceramide synthase by Fumonisin B1 Structure (IF 4.4) Pub Date : 2024-09-05 Kexin Hu, Yu Cao
Fumonisin B1 (FB1) targets sphingolipid biosynthesis, inhibiting ceramide synthases. In this issue of Structure, Zhang et al.1 determined the cryoelectron microscopic structures of yeast ceramide synthase in complex with FB1 and its acylated derivative, acyl-FB1, revealing a two-step “ping-pong” mechanism for the N-acylation of FB1 and how it inhibits ceramide synthase.
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Antiterminator LoaP loads onto RNA to chase a runaway RNA polymerase Structure (IF 4.4) Pub Date : 2024-09-05 Bing Wang, Irina Artsimovitch
In this issue of Structure, Elghondakly et al.1 present the crystal structure of Thermoanaerobacter pseudethanolicus antiterminator LoaP, a member of a ubiquitous family of NusG transcription factors, bound to its target, a dfn RNA hairpin. LoaP uses RNA as a recognition determinant, which is unique among NusG paralogs and makes unusual contacts in the major groove of the RNA.
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Structural review of SARS-CoV-2 antiviral targets Structure (IF 4.4) Pub Date : 2024-09-05 Wen Cui, Yinkai Duan, Yan Gao, Wei Wang, Haitao Yang
The coronavirus disease 2019 (COVID-19), the disease caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), represents the most disastrous infectious disease pandemic of the past century. As a member of the Betacoronavirus genus, the SARS-CoV-2 genome encodes a total of 29 proteins. The spike protein, RNA-dependent RNA polymerase, and proteases play crucial roles in the virus replication
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Microcrystal electron diffraction structure of Toll-like receptor 2 TIR-domain-nucleated MyD88 TIR-domain higher-order assembly. Acta Cryst. D (IF 2.6) Pub Date : 2024-09-04 Y Li,L C Pacoste,W Gu,S J Thygesen,K J Stacey,T Ve,B Kobe,H Xu,J D Nanson
Eukaryotic TIR (Toll/interleukin-1 receptor protein) domains signal via TIR-TIR interactions, either by self-association or by interaction with other TIR domains. In mammals, TIR domains are found in Toll-like receptors (TLRs) and cytoplasmic adaptor proteins involved in pro-inflammatory signaling. Previous work revealed that the MAL TIR domain (MALTIR) nucleates the assembly of MyD88TIR into crystalline
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Structural and functional mechanisms of anti-NMDAR autoimmune encephalitis Nat. Struct. Mol. Biol. (IF 12.5) Pub Date : 2024-09-03 Kevin Michalski, Taha Abdulla, Sam Kleeman, Lars Schmidl, Ricardo Gómez, Noriko Simorowski, Francesca Vallese, Harald Prüss, Manfred Heckmann, Christian Geis, Hiro Furukawa
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Shieldin and CST co-orchestrate DNA polymerase-dependent tailed-end joining reactions independently of 53BP1-governed repair pathway choice Nat. Struct. Mol. Biol. (IF 12.5) Pub Date : 2024-09-03 Ashleigh King, Pia I. Reichl, Jean S. Metson, Robert Parker, Daniella Munro, Catarina Oliveira, Lucia Sommerova, Jordan R. Becker, Daniel Biggs, Chris Preece, Benjamin Davies, J. Ross Chapman
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Structural basis for antibody-mediated NMDA receptor clustering and endocytosis in autoimmune encephalitis Nat. Struct. Mol. Biol. (IF 12.5) Pub Date : 2024-09-03 Han Wang, Chun Xie, Bo Deng, Jingjun Ding, Na Li, Zengwei Kou, Mengmeng Jin, Jie He, Qinrui Wang, Han Wen, Jinbao Zhang, Qinming Zhou, Sheng Chen, Xiangjun Chen, Ti-Fei Yuan, Shujia Zhu
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Deep learning permits imaging of multiple structures with the same fluorophores Biophys. J. (IF 3.2) Pub Date : 2024-09-03 Luhong Jin, Jingfang Liu, Heng Zhang, Yunqi Zhu, Haixu Yang, Jianhang Wang, Luhao Zhang, Cuifang Kuang, Baohua Ji, Ju Zhang, Xu Liu, Yingke Xu
Fluorescence microscopy, which employs fluorescent tags to label and observe cellular structures and their dynamics, is a powerful tool for life sciences. However, due to the spectral overlap between different dyes, a limited number of structures can be separately labeled and imaged for live-cell applications. In addition, the conventional sequential channel imaging procedure is quite time consuming
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YAP phosphorylation within integrin adhesions: Insights from a computational model Biophys. J. (IF 3.2) Pub Date : 2024-09-03 Hamidreza Jafarinia, Lidan Shi, Haguy Wolfenson, Aurélie Carlier
Mechanical and biochemical cues intricately activate Yes-associated protein (YAP), which is pivotal for the cellular responses to these stimuli. Recent findings reveal an unexplored role of YAP in influencing the apoptotic process. It has been shown that, on soft matrices, YAP is recruited to small adhesions, phosphorylated at Y357, and translocated into the nucleus triggering apoptosis. Interestingly
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Structural insight into synergistic activation of human 3-methylcrotonyl-CoA carboxylase Nat. Struct. Mol. Biol. (IF 12.5) Pub Date : 2024-09-02 Jiayue Su, Xuyang Tian, Hang Cheng, Desheng Liu, Ziyi Wang, Shan Sun, Hong-Wei Wang, Sen-Fang Sui
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Microfluidic measurement of the size and shape of lipid-anchored proteins Biophys. J. (IF 3.2) Pub Date : 2024-09-02 Sreeja Sasidharan, Leah Knepper, Emily Ankrom, Gabriel Cucé, Lingyang Kong, Amanda Ratajczak, Wonpil Im, Damien Thévenin, Aurelia Honerkamp-Smith
The surface of a cell is crowded with membrane proteins. The size, shape, density, and mobility of extracellular surface proteins mediate cell surface accessibility to external molecules, viral particles, and other cells. However, predicting these qualities is not always straightforward, even when protein structures are known. We previously developed an experimental method for measuring flow-driven
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Comparison of two crystal polymorphs of NowGFP reveals a new conformational state trapped by crystal packing. Acta Cryst. D (IF 2.6) Pub Date : 2024-09-02 Jin Kyun Kim,Hannah Jeong,Jeongwoo Seo,Seoyoon Kim,Kyung Hyun Kim,Duyoung Min,Chae Un Kim
Crystal polymorphism serves as a strategy to study the conformational flexibility of proteins. However, the relationship between protein crystal packing and protein conformation often remains elusive. In this study, two distinct crystal forms of a green fluorescent protein variant, NowGFP, are compared: a previously identified monoclinic form (space group C2) and a newly discovered orthorhombic form
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Post-translational modifications in the Protein Data Bank. Acta Cryst. D (IF 2.6) Pub Date : 2024-08-29 Lucy C Schofield,Jordan S Dialpuri,Garib N Murshudov,Jon Agirre
Proteins frequently undergo covalent modification at the post-translational level, which involves the covalent attachment of chemical groups onto amino acids. This can entail the singular or multiple addition of small groups, such as phosphorylation; long-chain modifications, such as glycosylation; small proteins, such as ubiquitination; as well as the interconversion of chemical groups, such as the
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Structural analysis of a ligand-triggered intermolecular disulfide switch in a major latex protein from opium poppy. Acta Cryst. D (IF 2.6) Pub Date : 2024-08-29 Samuel C Carr,Peter J Facchini,Kenneth K S Ng
Several proteins from plant pathogenesis-related family 10 (PR10) are highly abundant in the latex of opium poppy and have recently been shown to play diverse and important roles in the biosynthesis of benzylisoquinoline alkaloids (BIAs). The recent determination of the first crystal structures of PR10-10 showed how large conformational changes in a surface loop and adjacent β-strand are coupled to
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Surface-mutagenesis strategies to enable structural biology crystallization platforms. Acta Cryst. D (IF 2.6) Pub Date : 2024-08-29 Martina Schaefer,Vera Pütter,André Hilpmann,Ursula Egner,Simon James Holton,Roman Christian Hillig
A key prerequisite for the successful application of protein crystallography in drug discovery is to establish a robust crystallization system for a new drug-target protein fast enough to deliver crystal structures when the first inhibitors have been identified in the hit-finding campaign or, at the latest, in the subsequent hit-to-lead process. The first crucial step towards generating well folded
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Ras signaling mechanisms: New insights from single-molecule biophysics Biophys. J. (IF 3.2) Pub Date : 2024-08-31 Anne Marie McCombs, Joy R. Armendariz, Joseph J. Falke
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Structural insights into the convergent evolution of sulfoxide synthase EgtB-IV, an ergothioneine-biosynthetic homolog of ovothiol synthase OvoA Structure (IF 4.4) Pub Date : 2024-08-30 Kendra A. Ireland, Chase M. Kayrouz, Marissa L. Abbott, Mohammad R. Seyedsayamdost, Katherine M. Davis
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Structure of calcineurin bound to PI4KA reveals dual interface in both PI4KA and FAM126A Structure (IF 4.4) Pub Date : 2024-08-30 Alexandria L. Shaw, Sushant Suresh, Matthew A.H. Parson, Noah J. Harris, Meredith L. Jenkins, Calvin K. Yip, John E. Burke
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Cryo-EM structures of a bathy phytochrome histidine kinase reveal a unique light-dependent activation mechanism Structure (IF 4.4) Pub Date : 2024-08-30 Szabolcs Bódizs, Petra Mészáros, Lukas Grunewald, Heikki Takala, Sebastian Westenhoff
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Incorporating the diffusivity gradient term in Brownian dynamics simulations of diffusion Biophys. J. (IF 3.2) Pub Date : 2024-08-30 Rikki M. Garner, Arthur T. Molines, Julie A. Theriot, Fred Chang
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Constant-pH MD simulations of the protonation-triggered conformational switching in diphtheria toxin translocation domain Biophys. J. (IF 3.2) Pub Date : 2024-08-30 Nuno F.B. Oliveira, Alexey S. Ladokhin, Miguel Machuqueiro
Protonation of key residues in the diphtheria toxin translocation (T)-domain triggered by endosomal acidification is critical for inducing a series of conformational transitions critical for the cellular entry of the toxin. Previous experiments revealed the importance of histidine residues in modulating pH-dependent transitions. They suggested the presence of a “safety latch” preventing premature refolding
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C9orf72 polyPR interaction with the nuclear pore complex Biophys. J. (IF 3.2) Pub Date : 2024-08-30 Hamidreza Jafarinia, Erik Van der Giessen, Patrick R. Onck
The C9orf72 gene associated with amyotrophic lateral sclerosis/frontotemporal dementia is translated to five dipeptide repeat proteins, among which poly-proline-arginine (PR) is the most toxic in cell and animal models, contributing to a variety of cellular defects. It has been proposed that polyPR disrupts nucleocytoplasmic transport (NCT) through several mechanisms including accumulation in the nuclear
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Novel, tightly structurally related N-myristoyltransferase inhibitors display equally potent yet distinct inhibitory mechanisms Structure (IF 4.4) Pub Date : 2024-08-28 Frédéric Rivière, Cyril Dian, Rémi F. Dutheil, Paul Monassa, Carmela Giglione, Thierry Meinnel
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Unveiling the double-edged sword: SOD1 trimers possess tissue-selective toxicity and bind septin-7 in motor neuron-like cells Structure (IF 4.4) Pub Date : 2024-08-28 Esther Sue Choi, Brianna Hnath, Congzhou Mike Sha, Nikolay V. Dokholyan
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An internal linker and pH biosensing by phosphatidylinositol 5-phosphate regulate the function of the ESCRT-0 component TOM1 Structure (IF 4.4) Pub Date : 2024-08-28 Wen Xiong, Tiffany G. Roach, Nicolas Ball, Marija Corluka, Josephine Beyer, Anne M. Brown, Daniel G.S. Capelluto
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Advanced sampling simulations of coupled folding and binding of phage P22 N-peptide to boxB RNA Biophys. J. (IF 3.2) Pub Date : 2024-08-28 Luis Vollmers, Martin Zacharias
Protein-RNA interactions are crucially important for numerous cellular processes and often involve coupled folding and binding of peptide segments upon association. The Nut-utilization site (N)-protein of bacteriophages contains an N-terminal arginine-rich motif that undergoes such a folding transition upon binding to the boxB RNA hairpin loop target structure. Molecular dynamics free energy simulations
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Zinc inhibits the voltage-gated proton channel HCNL1 Biophys. J. (IF 3.2) Pub Date : 2024-08-28 Makoto F. Kuwabara, Joschua Klemptner, Julia Muth, Emilia De Martino, Dominik Oliver, Thomas K. Berger
Voltage-gated ion channels allow ion flux across biological membranes in response to changes in the membrane potential. HCNL1 is a recently discovered voltage-gated ion channel that selectively conducts protons through its voltage-sensing domain (VSD), reminiscent of the well-studied depolarization-activated Hv1 proton channel. However, HCNL1 is activated by hyperpolarization, allowing the influx of
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A BTB extension and ion-binding domain contribute to the pentameric structure and TFAP2A binding of KCTD1 Structure (IF 4.4) Pub Date : 2024-08-26 Daniel M. Pinkas, Joshua C. Bufton, Alice E. Hunt, Charlotte E. Manning, William Richardson, Alex N. Bullock
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Several common methods of making vesicles (except an emulsion method) capture intended lipid ratios Biophys. J. (IF 3.2) Pub Date : 2024-08-26 Heidi M.J. Weakly, Kent J. Wilson, Gunnar J. Goetz, Emily L. Pruitt, Amy Li, Libin Xu, Sarah L. Keller
Researchers choose different methods of making giant unilamellar vesicles to satisfy different constraints of their experimental designs. A challenge that arises when researchers use a variety of methods is that each method may produce vesicles with a different average lipid ratio, even if all experiments use lipids from a common stock mixture. Here, we use mass spectrometry to investigate ratios of
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New and Notable: Metabolic modeling of microbial communities: Past, present, and future Biophys. J. (IF 3.2) Pub Date : 2024-08-26 Imen Tanniche, Bahareh Behkam
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The minimal membrane requirements for BAX-induced pore opening upon exposure to oxidative stress Biophys. J. (IF 3.2) Pub Date : 2024-08-26 Paweł Mystek, Vandana Singh, Matěj Horváth, Karolína Honzejková, Petra Riegerová, Hüseyin Evci, Martin Hof, Tomáš Obšil, Radek Šachl
Perforation of the outer mitochondrial membrane triggered by BAX and facilitated by its main activator cBID is a fundamental process in cell apoptosis. Here, we employ a newly designed correlative approach based on a combination of a fluorescence cross correlation binding with a calcein permeabilization assay to understand the involvement of BAX in pore formation under oxidative stress conditions.
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Cryo-EM structure of the SPFH-NfeD family protein complex QmcA-YbbJ Structure (IF 4.4) Pub Date : 2024-08-23 Kwan Ann Tan, Zhu Qiao, Zachary Ze En Lim, Joshua Yi Yeo, Yonlada Yong, Phong Hoa Do, Ero Rya, Yong-Gui Gao
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Scorpion α-toxin LqhαIT specifically interacts with a glycan at the pore domain of voltage-gated sodium channels Structure (IF 4.4) Pub Date : 2024-08-23 Swastik Phulera, Callum J. Dickson, Christopher J. Schwalen, Maryam Khoshouei, Samantha J. Cassell, Yishan Sun, Tara Condos, Jonathan Whicher, Wilhelm A. Weihofen
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Estimation of vibrational spectra of Trp-cage protein from nonequilibrium metadynamics simulations Biophys. J. (IF 3.2) Pub Date : 2024-08-23 Sean A. Fischer, Steven J. Roeters, Heleen Meuzelaar, Sander Woutersen, Tobias Weidner, Jim Pfaendtner
The development of methods that allow a structural interpretation of linear and nonlinear vibrational spectra is of great importance, both for spectroscopy and for optimizing force field quality. The experimentally measured signals are ensemble averages over all accessible configurations, which complicates spectral calculations. To account for this, we present a recipe for calculating vibrational amide-I