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Macrophages need to release the proximal brake to degrade cellular corpses Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-04-18 Dimitris Typas
Writing in Nature, T. Tufan et al.1 address this gap in knowledge and provide novel functional and mechanistic insight into efferocytosis activation and execution. Assessing the RNA Polymerase II (Pol II) pausing index, the authors show that upon macrophages encountering apoptotic cells, several genes that bear high amounts of Pol II and are paused at promoter-proximal sites during the resting state
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Membrane-embedded machines Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-04-18
The first membrane protein structure was reported almost 40 years ago. In this issue, we are publishing a set of papers that serve to underline the incredible advances in our understanding of the biology of these multifaceted molecular machines.
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Future opportunities in solute carrier structural biology Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-04-18 Simon Newstead
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Vimentin filaments integrate low-complexity domains in a complex helical structure Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-04-17 Matthias Eibauer, Miriam S. Weber, Rafael Kronenberg-Tenga, Charlie T. Beales, Rajaa Boujemaa-Paterski, Yagmur Turgay, Suganya Sivagurunathan, Julia Kraxner, Sarah Köster, Robert D. Goldman, Ohad Medalia
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DNA double-strand break–capturing nuclear envelope tubules drive DNA repair Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-04-17 Mitra Shokrollahi, Mia Stanic, Anisha Hundal, Janet N. Y. Chan, Defne Urman, Chris A. Jordan, Anne Hakem, Roderic Espin, Jun Hao, Rehna Krishnan, Philipp G. Maass, Brendan C. Dickson, Manoor P. Hande, Miquel A. Pujana, Razqallah Hakem, Karim Mekhail
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HS-AFM single-molecule structural biology uncovers basis of transporter wanderlust kinetics Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-04-17 Yining Jiang, Atsushi Miyagi, Xiaoyu Wang, Biao Qiu, Olga Boudker, Simon Scheuring
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Molecular basis of Gabija anti-phage supramolecular assemblies Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-04-16 Xiao-Yuan Yang, Zhangfei Shen, Jiale Xie, Jacelyn Greenwald, Ila Marathe, Qingpeng Lin, Wen Jun Xie, Vicki H. Wysocki, Tian-Min Fu
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Structure of the γ-tubulin ring complex-capped microtubule Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-04-12 Amol Aher, Linas Urnavicius, Allen Xue, Kasahun Neselu, Tarun M. Kapoor
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Structure of the native γ-tubulin ring complex capping spindle microtubules Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-04-12 Tom Dendooven, Stanislau Yatskevich, Alister Burt, Zhuo A. Chen, Dom Bellini, Juri Rappsilber, John V. Kilmartin, David Barford
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Noncanonical assembly, neddylation and chimeric cullin–RING/RBR ubiquitylation by the 1.8 MDa CUL9 E3 ligase complex Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-04-11 Daniel Horn-Ghetko, Linus V. M. Hopf, Ishita Tripathi-Giesgen, Jiale Du, Sebastian Kostrhon, D. Tung Vu, Viola Beier, Barbara Steigenberger, J. Rajan Prabu, Luca Stier, Elias M. Bruss, Matthias Mann, Yue Xiong, Brenda A. Schulman
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Visualizing chaperone-mediated multistep assembly of the human 20S proteasome Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-04-10 Frank Adolf, Jiale Du, Ellen A. Goodall, Richard M. Walsh, Shaun Rawson, Susanne von Gronau, J. Wade Harper, John Hanna, Brenda A. Schulman
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Mechanism of autocatalytic activation during proteasome assembly Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-04-10 Benjamin Velez, Richard M. Walsh, Shaun Rawson, Aida Razi, Lea Adams, Erignacio Fermin Perez, Fenglong Jiao, Marie Blickling, Tamayanthi Rajakumar, Darlene Fung, Lan Huang, John Hanna
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Structure of adenylyl cyclase 5 in complex with Gβγ offers insights into ADCY5-related dyskinesia Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-04-08 Yu-Chen Yen, Yong Li, Chun-Liang Chen, Thomas Klose, Val J. Watts, Carmen W. Dessauer, John J. G. Tesmer
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Transport mechanism of presynaptic high-affinity choline uptake by CHT1 Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-04-08 Yunlong Qiu, Yiwei Gao, Bo Huang, Qinru Bai, Yan Zhao
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SCAF1 drives the compositional diversity of mammalian respirasomes Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-04-04 Irene Vercellino, Leonid A. Sazanov
Supercomplexes of the respiratory chain are established constituents of the oxidative phosphorylation system, but their role in mammalian metabolism has been hotly debated. Although recent studies have shown that different tissues/organs are equipped with specific sets of supercomplexes, depending on their metabolic needs, the notion that supercomplexes have a role in the regulation of metabolism has
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A rare genetic variant biases maternal meiotic recombination toward risk of pregnancy loss Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-04-03 Sara A. Carioscia, Rajiv C. McCoy
Pregnancy loss is common in humans, but maternal genetic factors modulating its incidence are largely unknown. In a meta-analysis of genome-wide association studies, researchers identified a genetic variant that seems to increase risk of pregnancy loss by dysregulating meiotic recombination between homologous chromosomes during egg formation.
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Shifting our perspective on orphan G protein-coupled receptors Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-04-02 Nicola J. Smith, Fiona Murray
G protein-coupled receptors (GPCRs) with no known endogenous ligand are termed orphans. Deorphanization of a GPCR involves identifying the ligand, which can be a painstaking exercise. In this Comment, we discuss the challenges in the process, its role in drug discovery and alternative approaches to characterizing orphan GPCRs.
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Molecular basis for Gβγ-mediated activation of phosphoinositide 3-kinase γ Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-04-02 Chun-Liang Chen, Ramizah Syahirah, Sandeep K. Ravala, Yu-Chen Yen, Thomas Klose, Qing Deng, John J. G. Tesmer
The conversion of phosphatidylinositol 4,5-bisphosphate to phosphatidylinositol 3,4,5-triphosphate by phosphoinositide 3-kinase γ (PI3Kγ) is critical for neutrophil chemotaxis and cancer metastasis. PI3Kγ is activated by Gβγ heterodimers released from G protein-coupled receptors responding to extracellular signals. Here we determined cryo-electron microscopy structures of Sus scrofa PI3Kγ–human Gβγ
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A personal perspective of the voltage-gated potassium channel studies Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-03-28 Lily Yeh Jan, Yuh Nung Jan
The identification of sodium and potassium currents as underlying action potential propagation, more than 70 years ago, opened a new avenue of research into the role of ion channels. In this Comment, we present our personal perspectives of the field, from the identification of Shaker as a potential potassium channel to the mechanistic insights available to us today.
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High-resolution structures of amyloid-β and tau aggregates in individuals with Down syndrome Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-03-29
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Cryo-EM structures of amyloid-β and tau filaments in Down syndrome Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-03-29 Anllely Fernandez, Md Rejaul Hoq, Grace I. Hallinan, Daoyi Li, Sakshibeedu R. Bharath, Frank S. Vago, Xiaoqi Zhang, Kadir A. Ozcan, Kathy L. Newell, Holly J. Garringer, Wen Jiang, Bernardino Ghetti, Ruben Vidal
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An oligopeptide permease, OppABCD, requires an iron–sulfur cluster domain for functionality Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-03-28 Xiaolin Yang, Tianyu Hu, Jingxi Liang, Zhiqi Xiong, Zhenli Lin, Yao Zhao, Xiaoting Zhou, Yan Gao, Shan Sun, Xiuna Yang, Luke W. Guddat, Haitao Yang, Zihe Rao, Bing Zhang
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Structural insights into the decoding capability of isoleucine tRNAs with lysidine and agmatidine Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-03-27 Naho Akiyama, Kensuke Ishiguro, Takeshi Yokoyama, Kenjyo Miyauchi, Asuteka Nagao, Mikako Shirouzu, Tsutomu Suzuki
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Structures of the ribosome bound to EF-Tu–isoleucine tRNA elucidate the mechanism of AUG avoidance Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-03-27 Mariia Yu. Rybak, Matthieu G. Gagnon
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Molecular stripping underpins derepression of a toxin–antitoxin system Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-03-27 Grzegorz J. Grabe, Rachel T. Giorgio, Miłosz Wieczór, Bridget Gollan, Molly Sargen, Modesto Orozco, Stephen A. Hare, Sophie Helaine
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Structural basis of the histone ubiquitination read–write mechanism of RYBP–PRC1 Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-03-25 Maria Ciapponi, Elena Karlukova, Sven Schkölziger, Christian Benda, Jürg Müller
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Musings on art and science Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-03-18
In addition to the usual dose of compelling science, our March issue features thoughtful reflections on the last 30 years from readers, as well as past and present editors. Perhaps influenced by these pieces or by our stunning cover — or maybe it is just the changing seasons — we are in an introspective mood this month.
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Looking back at 30 years of Nature Structural & Molecular Biology Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-03-18 Guy Riddihough, Christopher Surridge, Andreas G. Ladurner, Rosemary K. Clyne, Maria Hodges, Arianne Heinrichs, Katarzyna Marcinkiewicz, Florian Ullrich, Carolina Perdigoto, Sara Osman, Katarzyna Ciazynska, Dimitrios Typas
Over the past 30 years, Nature Structural & Molecular Biology (NSMB) has covered an enormous breadth of subjects in the broad field of molecular and structural biology. Here, some of the journal’s past and present editors recount their editorial experience at NSMB and some of the more memorable papers they worked on.
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The impact of DNA methylation on CTCF-mediated 3D genome organization Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-03-18 Ana Monteagudo-Sánchez, Daan Noordermeer, Maxim V. C. Greenberg
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Precise and scalable self-organization in mammalian pseudo-embryos Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-03-15 Mélody Merle, Leah Friedman, Corinne Chureau, Armin Shoushtarizadeh, Thomas Gregor
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A mechanistic model of primer synthesis from catalytic structures of DNA polymerase α–primase Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-03-15 Elwood A. Mullins, Lauren E. Salay, Clarissa L. Durie, Noah P. Bradley, Jane E. Jackman, Melanie D. Ohi, Walter J. Chazin, Brandt F. Eichman
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Structure-guided drug discovery: back to the future Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-03-14 Cheryl H. Arrowsmith
Over the past 30 years, the field of structural biology and its associated biological insights have seen amazing progress. In this Comment, I recount several milestones in the field and how we can apply lessons from the past toward an exciting future, especially as it relates to drug discovery.
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Structural basis of human U5 snRNP late biogenesis and recycling Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-03-11 Daria Riabov Bassat, Supapat Visanpattanasin, Matthias K. Vorländer, Laura Fin, Alexander W. Phillips, Clemens Plaschka
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Structure of the human 20S U5 snRNP Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-03-11 Sarah Schneider, Irina Brandina, Daniel Peter, Sonal Lagad, Angelique Fraudeau, Júlia Portell-Montserrat, Jonas Tholen, Jiangfeng Zhao, Wojciech P. Galej
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Structure of the human outer kinetochore KMN network complex Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-03-08 Stanislau Yatskevich, Jing Yang, Dom Bellini, Ziguo Zhang, David Barford
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Structure of the human KMN complex and implications for regulation of its assembly Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-03-08 Soumitra Polley, Tobias Raisch, Sabrina Ghetti, Marie Körner, Melina Terbeck, Frauke Gräter, Stefan Raunser, Camilo Aponte-Santamaría, Ingrid R. Vetter, Andrea Musacchio
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Structure and interactions of the endogenous human Commander complex Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-03-08 Saara Laulumaa, Esa-Pekka Kumpula, Juha T. Huiskonen, Markku Varjosalo
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Guiding the HBO1 complex function through the JADE subunit Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-03-06 Nitika Gaurav, Akinori Kanai, Catherine Lachance, Khan L. Cox, Jiuyang Liu, Adrian T. Grzybowski, Nehmé Saksouk, Brianna J. Klein, Yosuke Komata, Shuhei Asada, Alexander J. Ruthenburg, Michael G. Poirier, Jacques Côté, Akihiko Yokoyama, Tatiana G. Kutateladze
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Regulatory activity is the default DNA state in eukaryotes Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-03-06 Ishika Luthra, Cassandra Jensen, Xinyi E. Chen, Asfar Lathif Salaudeen, Abdul Muntakim Rafi, Carl G. de Boer
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Good reasons for structural biology Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-03-01 Patrick Cramer
The impressive achievements of structural biology leave us in awe, but also raise the question of whether we can still expect major developments in the field in the future. Before I provide my answer to this question, let me briefly reflect on the major advances in structural biology over the past three decades. Thirty years ago, in 1994, the journal Nature Structural Biology (renamed Nature Structural
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The open gate of the AMPA receptor forms a Ca2+ binding site critical in regulating ion transport Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-02-26 Terunaga Nakagawa, Xin-tong Wang, Federico J. Miguez-Cabello, Derek Bowie
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Nucleosome-bound NR5A2 structure reveals pioneer factor mechanism by DNA minor groove anchor competition Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-02-26 Wataru Kobayashi, Anna H. Sappler, Daniel Bollschweiler, Maximilian Kümmecke, Jérôme Basquin, Eda Nur Arslantas, Siwat Ruangroengkulrith, Renate Hornberger, Karl Duderstadt, Kikuë Tachibana
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The CNK–HYP scaffolding complex promotes RAF activation by enhancing KSR–MEK interaction Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-02-22 Pierre Maisonneuve, Malha Sahmi, Fanny Bergeron-Labrecque, Xianjie Iris Ma, Juliette Queguiner, Geneviève Arseneault, Martin Lefrançois, Igor Kurinov, Rémi Fronzes, Frank Sicheri, Marc Therrien
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Cryo-EM structure of human sphingomyelin synthase and its mechanistic implications for sphingomyelin synthesis Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-02-22 Kexin Hu, Qing Zhang, Yang Chen, Jintong Yang, Ying Xia, Bing Rao, Shaobai Li, Yafeng Shen, Mi Cao, Hongliang Lu, An Qin, Xian-Cheng Jiang, Deqiang Yao, Jie Zhao, Lu Zhou, Yu Cao
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Deadenylation kinetics of mixed poly(A) tails at single-nucleotide resolution Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-02-19 Young-suk Lee, Yevgen Levdansky, Yoonseok Jung, V. Narry Kim, Eugene Valkov
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Protein-intrinsic properties and context-dependent effects regulate pioneer factor binding and function Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-02-16 Tyler J. Gibson, Elizabeth D. Larson, Melissa M. Harrison
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Turning vaccine design on its head Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-02-16 Katarzyna Ciazynska
Different subtypes of influenza fusion protein hemagglutinin are included in the vaccine cocktail. However, the immune response is often produced against the immunodominant, variable region of hemagglutinin, while it is of interest to develop broadly neutralizing antibodies against the stem region, which is conserved. Eliciting an immune response against a conserved region promises broader protection
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Breaking the K48-chain: linking ubiquitin beyond protein degradation Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-02-16 Sanim Rahman, Cynthia Wolberger
The discovery of ubiquitin conjugation to lysines and the role of K48-linked polyubiquitin in targeting substrates for proteasomal degradation was followed by revelation of non-degradative roles of ubiquitination and, more recently, of non-canonical covalent ubiquitin linkages. Here we summarize findings of the ever-expanding array of ubiquitin signals and their biological roles.
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Towards an improved understanding of ubiquitylation Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-02-16
First discovered more than five decades ago, protein ubiquitylation has proven to be an omnipresent post-translational modification regulating virtually every eukaryotic cellular process. With novel clinical applications and recent studies demonstrating ubiquitylation of biomolecules other than proteins, the interest in ubiquitin will not waver any time soon.
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Ubiquitin in autophagy and non-protein ubiquitination Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-02-16 Noboru Mizushima
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Chemical rewiring of ubiquitination by degraders and their selectivity routes Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-02-16 Rory Whelan, Cristina Mayor-Ruiz
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Just how big is the ubiquitin system? Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-02-12 Bernhard C. Lechtenberg, David Komander
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Single-nucleoid architecture reveals heterogeneous packaging of mitochondrial DNA Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-02-12 R. Stefan Isaac, Thomas W. Tullius, Katja G. Hansen, Danilo Dubocanin, Mary Couvillion, Andrew B. Stergachis, L. Stirling Churchman
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Protein destabilization underlies pathogenic missense mutations in ARID1B Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-02-12 Fanny Mermet-Meillon, Samuele Mercan, Beatrice Bauer-Probst, Cyril Allard, Melusine Bleu, Keith Calkins, Judith Knehr, Marc Altorfer, Ulrike Naumann, Kathleen Sprouffske, Louise Barys, Fabian Sesterhenn, Giorgio G. Galli
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Structural basis for excitatory neuropeptide signaling Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-02-09 Valeria Kalienkova, Mowgli Dandamudi, Cristina Paulino, Timothy Lynagh
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Dynamic molecular architecture and substrate recruitment of cullin3–RING E3 ligase CRL3KBTBD2 Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-02-08 Yuxia Hu, Zhao Zhang, Qiyu Mao, Xiang Zhang, Aihua Hao, Yu Xun, Yeda Wang, Lin Han, Wuqiang Zhan, Qianying Liu, Yue Yin, Chao Peng, Eva Marie Y. Moresco, Zhenguo Chen, Bruce Beutler, Lei Sun
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Constitutive activation mechanism of a class C GPCR Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-02-08 Jinwoo Shin, Junhyeon Park, Jieun Jeong, Jordy Homing Lam, Xingyu Qiu, Di Wu, Kuglae Kim, Joo-Youn Lee, Carol V. Robinson, Jaekyung Hyun, Vsevolod Katritch, Kwang Pyo Kim, Yunje Cho
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Structural mechanisms of autoinhibition and substrate recognition by the ubiquitin ligase HACE1 Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-02-08 Jonas Düring, Madita Wolter, Julia J. Toplak, Camilo Torres, Olexandr Dybkov, Thornton J. Fokkens, Katherine E. Bohnsack, Henning Urlaub, Wieland Steinchen, Christian Dienemann, Sonja Lorenz
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Activation of CBASS Cap5 endonuclease immune effector by cyclic nucleotides Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-02-06 Olga Rechkoblit, Daniela Sciaky, Dale F. Kreitler, Angeliki Buku, Jithesh Kottur, Aneel K. Aggarwal
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Mechanism of millisecond Lys48-linked poly-ubiquitin chain formation by cullin-RING ligases Nat. Struct. Mol. Biol. (IF 16.8) Pub Date : 2024-02-07 Joanna Liwocha, Jerry Li, Nicholas Purser, Chutima Rattanasopa, Samuel Maiwald, David T. Krist, Daniel C. Scott, Barbara Steigenberger, J. Rajan Prabu, Brenda A. Schulman, Gary Kleiger