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DomainFit: Identification of protein domains in cryo-EM maps at intermediate resolution using AlphaFold2-predicted models Structure (IF 5.7) Pub Date : 2024-05-15 Jerry Gao, Maxwell Tong, Chinkyu Lee, Jacek Gaertig, Thibault Legal, Khanh Huy Bui
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Structural characterization of Thogoto Virus nucleoprotein provides insights into viral RNA encapsidation and RNP assembly Structure (IF 5.7) Pub Date : 2024-05-14 Alexej Dick, Vasilii Mikirtumov, Jonas Fuchs, Ferdinand Krupp, Daniel Olal, Elias Bendl, Thiemo Sprink, Christoph Diebolder, Mikhail Kudryashev, Georg Kochs, Yvette Roske, Oliver Daumke
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Cobalamin decyanation by the membrane transporter BtuM Structure (IF 5.7) Pub Date : 2024-05-10 Jose M. Martínez Felices, Yan Borges Barreto, Chancievan Thangaratnarajah, Jacob J. Whittaker, Adriano M. Alencar, Albert Guskov, Dirk J. Slotboom
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Polymorphic residues in HLA-B that mediate HIV control distinctly modulate peptide interactions with both TCR and KIR molecules Structure (IF 5.7) Pub Date : 2024-05-10 Rhoda Tano-Menka, Nishant K. Singh, Itai Muzhingi, Xiaolong Li, Michael V. Mandanas, Clarety Kaseke, Charles R. Crain, Angela Zhang, Funsho J. Ogunshola, Liza Vecchiarello, Alicja Piechocka-Trocha, Arman Bashirova, Michael E. Birnbaum, Mary Carrington, Bruce D. Walker, Gaurav D. Gaiha
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αMI-domain of integrin Mac-1 binds the cytokine pleiotrophin using multiple mechanisms Structure (IF 5.7) Pub Date : 2024-05-09 Hoa Nguyen, Nataly P. Podolnikova, Tatiana P. Ugarova, Xu Wang
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Slower CDK4 and faster CDK2 activation in the cell cycle Structure (IF 5.7) Pub Date : 2024-05-03 Wengang Zhang, Yonglan Liu, Hyunbum Jang, Ruth Nussinov
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Structural elucidation of the mesothelin-mucin-16/CA125 interaction Structure (IF 5.7) Pub Date : 2024-05-03
Mesothelin (MSLN) is a cell-surface glycoprotein expressed at low levels on normal mesothelium but overexpressed in many cancers. Mesothelin has been …
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DR-BERT: A protein language model to annotate disordered regions Structure (IF 5.7) Pub Date : 2024-05-02 Ananthan Nambiar, John Malcolm Forsyth, Simon Liu, Sergei Maslov
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Structural and biochemical characterization of a nucleotide hydrolase from Streptococcus pneumonia Structure (IF 5.7) Pub Date : 2024-05-02 Yuping Jin, Jiyuan Ke, Peiyi Zheng, Haiyan Zhang, Zhongliang Zhu, Liwen Niu
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Introducing: Ulrich J. Lorenz, Radoslav I. Enchev, Clare F. Megarity, Helen Ginn, Patrick Rabe, Alice R. Walker, and Kartik Ayyer Structure (IF 5.7) Pub Date : 2024-05-02
In this Voices article we introduce seven impressive young group leaders who spoke at the recent Ringberg Workshop on Structural Biology organized by …
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The critical importance of conditions: Reconciling GPCR functionality and biophysical findings Structure (IF 5.7) Pub Date : 2024-05-02 Melissa A. Reith, Jan K. Rainey
G-protein-coupled receptor (GPCR) activation relies on conformational sampling, a nuanced but functionally key behavior well suited to elucidation by nuclear magnetic resonance (NMR) spectroscopy. In this issue of Structure, Thakur et al.1 demonstrate that judicious choice of experimental conditions for 19F NMR studies of a GPCR enables rationalization of functional and pharmacological behavior, leading
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Enzyme engineering lets us play with new building blocks in non-ribosomal peptide synthesis Structure (IF 5.7) Pub Date : 2024-05-02 Minuri S. Ratnayake, Mathias H. Hansen, Max J. Cryle
In a recent issue of Nature Chemical Biology, Folger et al. demonstrated a high-throughput approach for engineering peptide bond forming domains from non-ribosomal peptide synthesis. A non-ribosomal peptide synthetase module from surfactin biosynthesis was reprogrammed to accept a fatty acid substrate into peptide biosynthesis, thus illustrating the potential of this approach for generating novel bioactive
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Structural insights into the bifunctional enzyme human FAD synthase Structure (IF 5.7) Pub Date : 2024-04-29 Giulia Leo, Piero Leone, Elham Ataie Kachoie, Maria Tolomeo, Michele Galluccio, Cesare Indiveri, Maria Barile, Stefano Capaldi
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Complementary structures of the yeast phosphate transporter Pho90 provide insights into its transport mechanism Structure (IF 5.7) Pub Date : 2024-04-29 Simon Schneider, Werner Kühlbrandt, Özkan Yildiz
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Constitutive activity of ionotropic glutamate receptors via hydrophobic substitutions in the ligand-binding domain Structure (IF 5.7) Pub Date : 2024-04-26 Sandra Seljeset, Oksana Sintsova, Yuhong Wang, Hassan Y. Harb, Timothy Lynagh
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Structural and functional insights into yeast Tbf1 as an atypical telomeric repeat-binding factor Structure (IF 5.7) Pub Date : 2024-04-26 Zhenfang Wu, Xin Gu, Lin Zha, Qingqiu Yang, Yuanze Zhou, Zhixiong Zeng
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Structural and functional characterization of itaconyl-CoA hydratase and citramalyl-CoA lyase involved in itaconate metabolism of Pseudomonas aeruginosa Structure (IF 5.7) Pub Date : 2024-04-26 Qin Huang, Chenxi Duan, Haichuan Ma, Cheng Nong, Qianqian Zheng, Jun Zhou, Ninglin Zhao, Xingyu Mou, Tonggen Liu, Shuang Zou, Ningchuan Yang, Aiping Tong, Wenming Qin, Rui Bao
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OPUS-Rota5: A highly accurate protein side-chain modeling method with 3D-Unet and RotaFormer Structure (IF 5.7) Pub Date : 2024-04-23 Gang Xu, Zhenwei Luo, Yaming Yan, Qinghua Wang, Jianpeng Ma
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Mapping structural and dynamic divergence across the MBOAT family Structure (IF 5.7) Pub Date : 2024-04-17 T. Bertie Ansell, Megan Healy, Claire E. Coupland, Mark S.P. Sansom, Christian Siebold
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Molecular basis for pH sensing in the KDEL trafficking receptor Structure (IF 5.7) Pub Date : 2024-04-15 Zhiyi Wu, Kathryn Smith, Andreas Gerondopoulos, Tomoaki Sobajima, Joanne L. Parker, Francis A. Barr, Simon Newstead, Philip C. Biggin
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Structural basis for the immune recognition and selectivity of the immune receptor PVRIG for ligand Nectin-2 Structure (IF 5.7) Pub Date : 2024-04-15 Songtao Hu, Pu Han, Meiyu Wang, Xiaoqing Cao, Hao Liu, Shuailong Zhang, Shuijun Zhang, Jun Liu, Yi Han, Jinhe Xiao, Qiang Chen, Kai Miao, Jianxun Qi, Shuguang Tan, George Fu Gao, Han Wang
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Cryo-EM structure of flagellotropic bacteriophage Chi Structure (IF 5.7) Pub Date : 2024-04-12 Ravi R. Sonani, Nathaniel C. Esteves, Birgit E. Scharf, Edward H. Egelman
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Human V-ATPase function is positively and negatively regulated by TLDc proteins Structure (IF 5.7) Pub Date : 2024-04-08 Rebecca A. Oot, Stephan Wilkens
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The cryo-EM structure of trypanosome 3-methylcrotonyl-CoA carboxylase provides mechanistic and dynamic insights into its enzymatic function Structure (IF 5.7) Pub Date : 2024-04-08 Adrián Plaza-Pegueroles, Inna Aphasizheva, Ruslan Aphasizhev, Carlos Fernández-Tornero, Federico M. Ruiz
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Crystal structure of archaeal IF5A-DHS complex reveals insights into the hypusination mechanism Structure (IF 5.7) Pub Date : 2024-04-05 Mattia D'Agostino, Angelita Simonetti, Stefano Motta, Philippe Wolff, Alice Romagnoli, Astra Piccinini, Francesco Spinozzi, Daniele Di Marino, Anna La Teana, Eric Ennifar
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Cryo-EM structures reveal two allosteric inhibition modes of PI3KαH1047R involving a re-shaping of the activation loop Structure (IF 5.7) Pub Date : 2024-04-05 Xiuliang Huang, Kailiang Wang, Jing Han, Xiumei Chen, Zhenglin Wang, Tianlun Wu, Bo Yu, Feng Zhao, Xinjuan Wang, Huijuan Li, Zhi Xie, Xiaotian Zhu, Wenge Zhong, Xiaoming Ren
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A glimpse into Giardia lamblia unique translational machinery Structure (IF 5.7) Pub Date : 2024-04-04 Jailson Brito Querido
Eiler et al. used cryo-electron microscopy to determine a 2.49 Å resolution structure of Giardia lamblia 80S ribosome bound to tRNA, mRNA, and the anti-protozoal drug emetine. The structure reveals some critical aspects of translation in G. lamblia, including the lack of ribosomal protein RACK1, and how emetine blocks translation by interacting with both the ribosome and mRNA.
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Structural basis for the inhibition mechanism of the DNA polymerase holoenzyme from mpox virus Structure (IF 5.7) Pub Date : 2024-04-04 Yaping Shen, Yaning Li, Renhong Yan
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MLL4 binds TET3 Structure (IF 5.7) Pub Date : 2024-04-04 Dustin C. Becht, Sk Abdul Mohid, Ji-Eun Lee, Mohamad Zandian, Caroline Benz, Soumi Biswas, Vikrant Kumar Sinha, Ylva Ivarsson, Kai Ge, Yi Zhang, Tatiana G. Kutateladze
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Full-length αIIbβ3 cryo-EM structure reveals intact integrin initiate-activation intrinsic architecture Structure (IF 5.7) Pub Date : 2024-04-04 Tong Huo, Hongjiang Wu, Zeinab Moussa, Mehmet Sen, Valerie Dalton, Zhao Wang
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Disorder in CENP-ACse4 tail-chaperone interaction facilitates binding with Ame1/Okp1 at the kinetochore Structure (IF 5.7) Pub Date : 2024-04-01 Shivangi Shukla, Anusri Bhattacharya, Parveen Sehrawat, Prakhar Agarwal, Rahul Shobhawat, Nikita Malik, Kalaiyarasi Duraisamy, Nithyakalyani Sri Rangan, Ramakrishna V. Hosur, Ashutosh Kumar
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High-resolution cryo-EM of a small protein complex: The structure of the human CDK-activating kinase Structure (IF 5.7) Pub Date : 2024-04-01 Basil J. Greber
The human CDK-activating kinase (CAK) is a multifunctional protein complex and key regulator of cell growth and division. Because of its critical functions in regulating the cell cycle and transcription initiation, it is a key target for multiple cancer drug discovery programs. However, the structure of the active human CAK, insights into its regulation, and its interactions with cellular substrates
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Structural and mechanistic insights into disease-associated endolysosomal exonucleases PLD3 and PLD4 Structure (IF 5.7) Pub Date : 2024-03-26 Meng Yuan, Linghang Peng, Deli Huang, Amanda Gavin, Fangkun Luan, Jenny Tran, Ziqi Feng, Xueyong Zhu, Jeanne Matteson, Ian A. Wilson, David Nemazee
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The HisRS-like domain of GCN2 is a pseudoenzyme that can bind uncharged tRNA Structure (IF 5.7) Pub Date : 2024-03-25 Jay Z. Yin, Alexander F.A. Keszei, Scott Houliston, Frantisek Filandr, Jonah Beenstock, Salima Daou, Julia Kitaygorodsky, David C. Schriemer, Mohammad T. Mazhab-Jafari, Anne-Claude Gingras, Frank Sicheri
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Monitoring the conformational ensemble and lipid environment of a mechanosensitive channel under cyclodextrin-induced membrane tension Structure (IF 5.7) Pub Date : 2024-03-22 Benjamin J. Lane, Yue Ma, Nana Yan, Bolin Wang, Katrin Ackermann, Theodoros K. Karamanos, Bela E. Bode, Christos Pliotas
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Stabilization of F-actin by Salmonella effector SipA resembles the structural effects of inorganic phosphate and phalloidin Structure (IF 5.7) Pub Date : 2024-03-21 Ewa Niedzialkowska, Lucas A. Runyan, Elena Kudryashova, Edward H. Egelman, Dmitri S. Kudryashov
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Structural insights into a functional unit from an immunogenic mollusk hemocyanin Structure (IF 5.7) Pub Date : 2024-03-20 Sebastián M. Muñoz, Gabriel Vallejos-Baccelliere, Augusto Manubens, Michelle L. Salazar, Andrey F.Z. Nascimento, Patricio Tapia-Reyes, Claudio Meneses, Andre L.B. Ambrosio, María Inés Becker, Victoria Guixé, Victor Castro-Fernandez
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A suite of designed protein cages using machine learning and protein fragment-based protocols Structure (IF 5.7) Pub Date : 2024-03-20 Kyle Meador, Roger Castells-Graells, Roman Aguirre, Michael R. Sawaya, Mark A. Arbing, Trent Sherman, Chethaka Senarathne, Todd O. Yeates
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PMSPcnn: Predicting protein stability changes upon single point mutations with convolutional neural network Structure (IF 5.7) Pub Date : 2024-03-19 Xiaohan Sun, Shuang Yang, Zhixiang Wu, Jingjie Su, Fangrui Hu, Fubin Chang, Chunhua Li
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DNAJB8 oligomerization is mediated by an aromatic-rich motif that is dispensable for substrate activity Structure (IF 5.7) Pub Date : 2024-03-19 Bryan D. Ryder, Elizaveta Ustyantseva, David R. Boyer, Ayde Mendoza-Oliva, Mikołaj I. Kuska, Paweł M. Wydorski, Paulina Macierzyńska, Nabil Morgan, Michael R. Sawaya, Marc I. Diamond, Harm H. Kampinga, Lukasz A. Joachimiak
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Structural insights into the catalytic mechanism of the AP endonuclease AtARP Structure (IF 5.7) Pub Date : 2024-03-18 Wenting Guo, Weijun Wu, Yan Wen, Yuan Gao, Shuting Zhuang, Chunyan Meng, Haitao Chen, Zhipeng Zhao, Kaishun Hu, Baixing Wu
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Structures of 3-acetylpyridine adenine dinucleotide and ADP-ribose bound to the electron input module of respiratory complex I Structure (IF 5.7) Pub Date : 2024-03-18 Daniel Wohlwend, Luca Mérono, Sarah Bucka, Kevin Ritter, Henning J. Jessen, Thorsten Friedrich
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Structural insights into thermophilic chaperonin complexes Structure (IF 5.7) Pub Date : 2024-03-15 Zengwei Liao, Chai C. Gopalasingam, Masafumi Kameya, Christoph Gerle, Hideki Shigematsu, Masaharu Ishii, Takatoshi Arakawa, Shinya Fushinobu
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Restraint validation of biomolecular structures determined by NMR in the Protein Data Bank Structure (IF 5.7) Pub Date : 2024-03-14 Kumaran Baskaran, Eliza Ploskon, Roberto Tejero, Masashi Yokochi, Deborah Harrus, Yuhe Liang, Ezra Peisach, Irina Persikova, Theresa A. Ramelot, Monica Sekharan, James Tolchard, John D. Westbrook, Benjamin Bardiaux, Charles D. Schwieters, Ardan Patwardhan, Sameer Velankar, Stephen K. Burley, Genji Kurisu, Jeffrey C. Hoch, Gaetano T. Montelione, Jasmine Y. Young
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Correlative cryo-soft X-ray tomography and cryo-structured illumination microscopy reveal changes to lysosomes in amyloid-β-treated neurons Structure (IF 5.7) Pub Date : 2024-03-11 Karen E. Marshall, Kurtis Mengham, Matthew C. Spink, Lyra Vania, Hannah Jane Pollard, Michele C. Darrow, Elizabeth Duke, Maria Harkiolaki, Louise C. Serpell
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CHCHD4 binding affects the active site of apoptosis inducing factor (AIF): Structural determinants for allosteric regulation Structure (IF 5.7) Pub Date : 2024-03-08 Elisa Fagnani, Paolo Cocomazzi, Sara Pellegrino, Gabriella Tedeschi, Francesca Grassi Scalvini, Federica Cossu, Stefano Da Vela, Alessandro Aliverti, Eloise Mastrangelo, Mario Milani
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Structural insights into the unique pH-responsive characteristics of the anti-TIGIT therapeutic antibody Ociperlimab Structure (IF 5.7) Pub Date : 2024-03-08 Jian Sun, Xiangxiang Zhang, Liu Xue, Liang Cheng, Jing Zhang, Xin Chen, Zhirong Shen, Kang Li, Lai Wang, Chichi Huang, Jing Song
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Locally misfolded HER2 expressed on cancer cells is a promising target for development of cancer-specific antibodies Structure (IF 5.7) Pub Date : 2024-03-08 Takao Arimori, Emiko Mihara, Hiroyuki Suzuki, Tomokazu Ohishi, Tomohiro Tanaka, Mika K. Kaneko, Junichi Takagi, Yukinari Kato
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Cryo-EM structure of wheat ribosome reveals unique features of the plant ribosomes Structure (IF 5.7) Pub Date : 2024-03-07 Rishi Kumar Mishra, Prafful Sharma, Faisal Tarique Khaja, Adwaith B. Uday, Tanweer Hussain
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Heterogeneous sampled subgraph neural networks with knowledge distillation to enhance double-blind compound-protein interaction prediction Structure (IF 5.7) Pub Date : 2024-03-05 Ying Xia, Xiaoyong Pan, Hong-Bin Shen
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The mechanism and energetics of the dynein priming stroke Structure (IF 5.7) Pub Date : 2024-03-01 Mert Golcuk, Sema Zeynep Yilmaz, Ahmet Yildiz, Mert Gur
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AutoRNC: An automated modeling program for building atomic models of ribosome-nascent chain complexes Structure (IF 5.7) Pub Date : 2024-02-29 Robert T. McDonnell, Adrian H. Elcock
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Cryo-EM structure and molecular dynamic simulations explain the enhanced stability and ATP activity of the pathological chaperonin mutant Structure (IF 5.7) Pub Date : 2024-02-26 Aiza Syed, Jihang Zhai, Baolin Guo, Yuan Zhao, Joseph Che-Yen Wang, Lingling Chen
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X-rays, electrons, and neutrons as probes of atomic matter Structure (IF 5.7) Pub Date : 2024-02-26 Matthias Bochtler
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Membrane mimetic-dependence of GPCR energy landscapes Structure (IF 5.7) Pub Date : 2024-02-23 Naveen Thakur, Arka Prabha Ray, Beining Jin, Nessa Pesaran Afsharian, Edward Lyman, Zhan-Guo Gao, Kenneth A. Jacobson, Matthew T. Eddy
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Insertases scramble lipids: Molecular simulations of MTCH2 Structure (IF 5.7) Pub Date : 2024-02-19 Ladislav Bartoš, Anant K. Menon, Robert Vácha
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EncoMPASS: An encyclopedia of membrane proteins analyzed by structure and symmetry Structure (IF 5.7) Pub Date : 2024-02-16 Antoniya A. Aleksandrova, Edoardo Sarti, Lucy R. Forrest
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Modular catalytic activity of nonribosomal peptide synthetases depends on the dynamic interaction between adenylation and condensation domains Structure (IF 5.7) Pub Date : 2024-02-09 Ye-Jun Peng, Yuxing Chen, Cong-Zhao Zhou, Wei Miao, Yong-Liang Jiang, Xiaoli Zeng, Cheng-Cai Zhang
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Fluorinated cGAMP analogs, which act as STING agonists and are not cleavable by poxins: Structural basis of their function Structure (IF 5.7) Pub Date : 2024-02-06 Martin Klima, Milan Dejmek, Vojtech Duchoslav, Andrea Eisenreichova, Michal Sala, Karel Chalupsky, Dominika Chalupska, Barbora Novotná, Gabriel Birkuš, Radim Nencka, Evzen Boura
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Chaperone-assisted cryo-EM structure of P. aeruginosa PhuR reveals molecular basis for heme binding Structure (IF 5.7) Pub Date : 2024-02-06 Paweł P. Knejski, Satchal K. Erramilli, Anthony A. Kossiakoff