Article
Multidisciplinary Sciences
Shuyan Dai, Lingzhi Qu, Jun Li, Ye Zhang, Longying Jiang, Hudie Wei, Ming Guo, Xiaojuan Chen, Yongheng Chen
Summary: The aryl hydrocarbon receptor (AHR), an important transcription factor, plays significant roles in regulating xenobiotic metabolism, cellular differentiation, and immunity. This study provides multiple crystal structures of the Drosophila AHR PAS-B domain, which sheds light on the mechanism of AHR ligand binding. These findings have implications for the development of AHR-targeted therapeutics.
NATURE COMMUNICATIONS
(2022)
Article
Hematology
Ming Zhang, Hao Zhang, Zhihui Li, Ling Bai, Qianqian Wang, Jianfeng Li, Minghao Jiang, Qing Xue, Nuo Cheng, Weina Zhang, Dongdong Mao, Zhiming Chen, Jinyan Huang, Guoyu Meng, Zhu Chen, Sai-Juan Chen
Summary: Recurrent MEF2D fusions are found in B-cell precursor ALL with poor prognosis. This study shows that MEF2D-HNRNPUL1 (MH) knock-in mice develop progressive disease resembling BCP-ALL. MH cooperates with NRASG12D to drive an outbreak of BCP-ALL with an aggressive phenotype. The study identifies key networks involved and characterizes the MEF2D-MRE complex in atomic resolution. Targeting MH-driven transactivation improves the survival of MH/NRASG12D BCP-ALL mice.
Article
Biochemistry & Molecular Biology
Li Huang, Youwang Wang, Haizhen Long, Haoqiang Zhu, Zengqi Wen, Liwei Zhang, Wenhao Zhang, Zhenqian Guo, Longge Wang, Fangyi Tang, Jie Hu, Keyan Bao, Ping Zhu, Guohong Li, Zheng Zhou
Summary: This study reveals the interaction between SUV420H1 and H2A.Z-nucleosome or H2A-nucleosome through cryo-EM structures. It demonstrates that SUV420H1 directly interacts with H4 N-terminal tail, the DNA, and the acidic patch in the nucleosome. The study also highlights the crucial role of the SUV420H1 KR loop in the preferential recognition of H2A.Z-nucleosome.
Article
Multidisciplinary Sciences
Joseph S. Snowden, Jehad Alzahrani, Lee Sherry, Martin Stacey, David J. Rowlands, Neil A. Ranson, Nicola J. Stonehouse
Summary: This study reanalyzed the structure of type I fatty acid synthases (FASs) and identified several differences in both structural and enzymatic domains between P. pastoris FAS and the prototypical yeast FAS from S. cerevisiae. By using focussed classification, the researchers were able to resolve and model the mobile acyl-carrier protein (ACP) domain, which is crucial for the function of FAS. The structure reported in this study will serve as a valuable resource for further engineering efforts to synthesize alternate products using yeast FAS.
SCIENTIFIC REPORTS
(2021)
Article
Multidisciplinary Sciences
Andrey G. Baranovskiy, Nigar D. Babayeva, Alisa E. Lisova, Lucia M. Morstadt, Tahir H. Tahirov
Summary: This study focused on the structure and function of human DNA polymerase alpha (Pol alpha) in its interaction with a mismatched template:primer. It was found that Pol alpha has low affinity to DNA in the absence of deoxynucleotide triphosphate (dNTP), but shows higher selectivity for a correct duplex in the presence of cognate dNTP. The efficiency of Pol alpha in extending a T-C mismatch is significantly reduced. This research is important for understanding the mechanism of Pol alpha infidelity.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Review
Biochemistry & Molecular Biology
Amita R. Sahoo, Matthias Buck
Summary: This review focuses on the interaction between Eph receptors and ephrin ligands in regulating various processes from embryonic development to tissue homeostasis. It also highlights the importance of the transmembrane domain of Eph receptors in signal transduction and introduces techniques such as NMR and molecular modeling used to study them. Additionally, the use of transmembrane peptides to manipulate Eph receptor signaling is discussed, along with future directions for research in this field.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemistry & Molecular Biology
Qiang Lu, Taiyu Chen, Jiening Wang, Feng Wang, Wenlong Ye, Lixin Ma, Shan Wu
Summary: This study presents a cryo-EM structure of an RNA polymerase transcription complex containing a temperature-sensitive bacterial sigma factor, sigma(32) (sigma(32)-RPo). The structure reveals key interactions essential for the assembly of E. coli sigma(32)-RNAP holoenzyme and for promoter recognition and unwinding by sigma(32). These unique structural features advance our understanding of the mechanism of transcription initiation mediated by different sigma factors.
Article
Hematology
Louris J. Feitsma, Harma C. Brondijk, Gavin E. Jarvis, Dominique Hagemans, Dominique Bihan, Natasia Jerah, Marian Versteeg, Richard W. Farndale, Eric G. Huizinga
Summary: Glycoprotein VI (GPVI) plays a crucial role in collagen-induced platelet activation and is essential in the development of thrombosis, heart attack, and stroke. This study reveals the crystal structures of GPVI bound to collagen peptides and identifies the binding site and essential residues for collagen binding. The study also demonstrates the binding of GPVI to collagen chains containing the sequence motif OGPOGP. These findings provide insights for the development of receptor-specific therapeutics targeting GPVI.
Article
Neurosciences
Lianglong Sun, Xinyuan Liang, Dingna Duan, Jin Liu, Yuhan Chen, Xindi Wang, Xuhong Liao, Mingrui Xia, Tengda Zhao, Yong He
Summary: The study demonstrates the spatial convergence of individual variability in structural and functional connectomes, with higher variability in heteromodal association regions and lower variability in primary regions. Functional variability is significantly influenced by a unifying structural variability pattern, with higher accuracy in primary regions and lower accuracy in heteromodal regions.
Article
Multidisciplinary Sciences
Luke S. Ferro, Qianglin Fang, Lisa Eshun-Wilson, Jonathan Fernandes, Amanda Jack, Daniel P. Farrell, Mert Golcuk, Teun Huijben, Katelyn Costa, Mert Gur, Frank DiMaio, Eva Nogales, Ahmet Yildiz
Summary: Research has found that MAP7 is a required cofactor for kinesin-1-driven transport of intracellular cargoes. MAP7 binds to microtubules (MTs) and facilitates kinesin-1 motility, but it also inhibits kinesin-1 motility by partially overlapping with its binding site. However, by tethering kinesin-1 to the MT, MAP7 prevents dissociation of the motor and facilitates its binding to other available sites. This biphasic regulation of kinesin-1 by MAP7 becomes dominant when MTs are saturated with MAP7.
Review
Biochemistry & Molecular Biology
Mutsuko Kukimoto-Niino, Mikako Shirouzu, Tesshi Yamada
Summary: TNIK is a promising therapeutic target for colorectal cancer due to its role in regulating the Wnt/β-catenin signaling pathway. In this study, structural insights into TNIK inhibitors targeting the ATP-binding site are presented.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Multidisciplinary Sciences
Christina Lamers, Xiaoguang Xue, Martin Smiesko, Henri van Son, Bea Wagner, Nadja Berger, Georgia Sfyroera, Piet Gros, John D. Lambris, Daniel Ricklin
Summary: The authors provide molecular-level insight into the mode-of-action, target selectivity, and species specificity of the compstatin family of complement inhibitors, which entered the clinic in 2021.
NATURE COMMUNICATIONS
(2022)
Article
Plant Sciences
Yanming Zhang, Guanghui Yang
Summary: We present high-resolution cryo-electron microscopy structures of SOS1, a key player in plant salt tolerance. Our analyses suggest a model for the regulation of SOS1 activity by its unique large cytoplasmic domain, which enhances our understanding of SOS1 activity regulation mechanisms.
Article
Immunology
Rajesh T. Gandhi, Joshua C. Cyktor, Ronald J. Bosch, Hanna Mar, Gregory M. Laird, Albine Martin, Ann C. Collier, Sharon A. Riddler, Bernard J. Macatangay, Charles R. Rinaldo, Joseph J. Eron, Janet D. Siliciano, Deborah K. McMahon, John W. Mellors
Summary: Intact, replication-competent proviruses are selectively lost over time during suppressive ART, while defective provirus levels remain stable. The proportion of intact proviruses within the total HIV-1 DNA reservoir decreases over time on ART. Levels of intact proviruses on ART are correlated with total HIV-1 DNA and residual plasma viremia, but not with markers of inflammation or immune activation.
JOURNAL OF INFECTIOUS DISEASES
(2021)
Article
Biochemistry & Molecular Biology
Seung Han Son, Min Young Kim, Eunbi Jo, Vladimir N. Uversky, Chul Geun Kim
Summary: This study reveals unprecedented insights into the structure and function of CP2c, providing clues for its transcriptional regulation mechanism and potential therapeutic targeting.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Engineering, Electrical & Electronic
Mengchi Cai, Qing Xu, Chaoyi Chen, Jiawei Wang, Keqiang Li, Jianqiang Wang, Qianying Zhu
Summary: This paper proposes a multi-lane formation control strategy for connected and automated vehicles. In the upper-level, a relative coordinate system is built to plan collision-free relative paths for vehicles. In the lower-level, multi-stage trajectory planning and tracking are modeled as an optimal control problem.
IET INTELLIGENT TRANSPORT SYSTEMS
(2023)
Article
Oncology
Zengpanpan Ye, Xiaolin Ai, Kailin Yang, Zhengnan Yang, Fan Fei, Xiaoling Liao, Zhixin Qiu, Ryan C. Gimple, Huairui Yuan, Hao Huang, Yanqiu Gong, Chaoxin Xiao, Jing Yue, Liang Huang, Olivier Saulnier, Wei Wang, Peidong Zhang, Lunzhi Dai, Xin Wang, Xiuxing Wang, Young Ha Ahn, Chao You, Jianguo Xu, Xiaoxiao Wan, Michael D. Taylor, Linjie Zhao, Jeremy N. Rich, Shengtao Zhou
Summary: Single-cell sequencing of glioblastoma tumor immune microenvironment (TIME) revealed that oxidative stress induces NR4A2-dependent transcriptional activity in microglia. Inhibition of NR4A2 or SQLE enhances the efficacy of immune-checkpoint blockade in GBM. Metabolic reprogramming of microglia informs synergistic vulnerabilities for immune-checkpoint blockade therapy in this immunologically cold brain tumor.
Article
Biotechnology & Applied Microbiology
Ruilian Li, Jinsong Duan, Yicheng Zhou, Jiawei Wang
Summary: Class IId (lactococcin-like) bacteriocins and class IIa (pediocin-like) bacteriocins induce membrane leakage and cell death by binding to the mannose phosphotransferase system (man-PTS) on target cells. Class IId bacteriocins specifically target lactococcal cells, while class IIa bacteriocins target diverse bacterial cells except lactococcal cells.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2023)
Article
Energy & Fuels
Jiawei Wang, Qinglai Guo, Hongbin Sun, Min Chen
Summary: A bilevel optimization framework for logistics and electricity is proposed to jointly optimize the planning and operation of a mobile charging service system. The framework includes upper-level transportation logistics planning MCV fleet size and routes, and lower-level battery energy management planning battery number and charging/discharging. Through iteration and adjustment, the framework maximizes the MCSO's net profit and provides assistance to the power system. Numerical experiments verify the effectiveness of the proposed framework.
Article
Biochemical Research Methods
Zhiqiang Xu, Yi Liu, Siyu He, Rui Sun, Chenxi Zhu, Shuangqing Li, Shan Hai, Yubin Luo, Yi Zhao, Lunzhi Dai
Summary: In this study, a strategy to quantify intact N-glycopeptides was used to perform an in-depth glycoproteomics analysis of rheumatoid arthritis (RA) synovium. The results revealed that hyper-glycosylated proteins in RA were closely associated with immune responses, and the levels of glycosylation at certain sites were significantly correlated with the enrichment scores of specific immune cell types. Aberrant N-glycosylation in the RA synovium was also found to be related to increased expression of glycosylation enzymes. This work presents the N-glycoproteome of RA synovium and provides novel insights into RA pathogenesis.
MOLECULAR & CELLULAR PROTEOMICS
(2023)
Article
Biochemical Research Methods
Rou Zhang, Meng Hu, Hai-Ning Chen, Xiuxuan Wang, Zhili Xia, Yu Liu, Rui Wang, Xuyang Xia, Yang Shu, Dan Du, Wenbo Meng, Shiqian Qi, Yuan Li, Heng Xu, Zong-Guang Zhou, Lunzhi Dai
Summary: This study investigates the impact of APC mutation on the prognosis of colorectal cancer patients and identifies RAI14 as an important prognostic determinant for APC-mutant colon cancer patients. High expression of RAI14 is associated with poor response to chemotherapy.
MOLECULAR & CELLULAR PROTEOMICS
(2023)
Article
Biochemical Research Methods
Li Gao, Ying Lu, Hai-Ning Chen, Zhigui Li, Meng Hu, Rou Zhang, Xiuxuan Wang, Zhiqiang Xu, Yanqiu Gong, Rui Wang, Dan Du, Shan Hai, Shuangqing Li, Dan Su, Yuan Li, Heng Xu, Zong-Guang Zhou, Lunzhi Dai
Summary: This study found that the expression of GSK3 alpha, but not GSK30, was significantly correlated with the overall survival of colon cancer patients. Through analysis of its phosphorylation substrates and protein interactions, specific functions of GSK3 alpha in colon cancer were revealed, suggesting it as a potential therapeutic target.
MOLECULAR & CELLULAR PROTEOMICS
(2023)
Article
Oncology
Lu Qi, Xiangyu Pan, Xuelan Chen, Pengpeng Liu, Mei Chen, Qi Zhang, Xiaohang Hang, Minghai Tang, Dan Wen, Lunzhi Dai, Chong Chen, Yu Liu, Zhengmin Xu
Summary: Deletions of chromosome 17p, especially in TP53 gene, are frequently observed in human cancers and associated with poor outcomes. Previous studies have shown that p53-independent mechanisms are involved in 17p deletions-driven cancers. In this study, we found that altered arachidonate metabolism caused by Alox8 deficiency on chromosome 11B3 contributes to B cell malignancy. Upregulation of the cyclooxygenase pathway and increased levels of prostaglandin E2 were observed in cells with Alox8 loss. Ectopic PGE2 inhibited apoptosis and differentiation of pre-B cells. The upregulation of Cox-2 by Alox8 deficiency was found to be crucial for tumorigenesis, and COX-2 inhibitor was effective in treating tumors with Alox8 or 11B3 loss.
Review
Medicine, Research & Experimental
Qian Zhong, Xina Xiao, Yijie Qiu, Zhiqiang Xu, Chunyu Chen, Baochen Chong, Xinjun Zhao, Shan Hai, Shuangqing Li, Zhenmei An, Lunzhi Dai
Summary: Protein posttranslational modifications (PTMs) refer to the breaking or generation of covalent bonds on proteins, which expands protein diversity and contributes to organismal complexity. There are over 650 types of PTMs described to date, including phosphorylation, ubiquitination, glycosylation, methylation, SUMOylation, and various acylation modifications. PTMs can alter protein structure, localization, activity, stability, and interactions, ultimately impacting cell phenotypes and biological processes. Abnormal PTMs are closely related to various diseases. This review introduces the characteristics, regulatory mechanisms, and functions of PTMs in health and diseases, as well as the therapeutic potential in targeting PTMs and associated enzymes for disease treatment.
Article
Chemistry, Multidisciplinary
Xiaohong Wang, Xuemei Zhang, Li Xue, Qingqing Wang, Fengzhi You, Lunzhi Dai, Jiagang Wu, Soren Kramer, Zhong Lian
Summary: In this study, a general method for the synthesis of aryl fluorides from aryldiazonium tetrafluoroborates using a piezoelectric material as redox catalyst under ball milling conditions in the presence of Selectfluor was described. This approach effectively addresses the limitations of the Balz-Schiemann reaction while the piezoelectric material can be recycled multiple times.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2023)
Article
Biochemistry & Molecular Biology
Salvatore P. Mangiafico, Qing-Zhang Tuo, Xiao-Lan Li, Yu Liu, Christian Haralambous, Xu-Long Ding, Scott Ayton, Qing Wang, D. Ross Laybutt, Jeng Yie Chan, Xiang Zhang, Cameron Kos, Helen E. Thomas, Thomas Loudovaris, Chieh-Hsin Yang, Christos N. Joannides, Benjamin J. Lamont, Lunzhi Dai, Hai-Huai He, Biao Dong, Sofianos Andrikopoulos, Ashley I. Bush, Peng Lei
Summary: Tau protein plays a crucial role in regulating insulin secretion and glucose homeostasis in response to glucose stimulation, and a potential relationship between T2DM and AD has been established.
MOLECULAR PSYCHIATRY
(2023)
Article
Oncology
Pengle Yao, Peng Xiao, Zongyao Huang, Min Tang, Xiwen Tang, Gaoxia Yang, Qi Zhang, Xinpei Li, Zhengnan Yang, Chuanxing Xie, Hui Gong, Guihua Wang, Yutong Liu, Xiuxuan Wang, Huifang Li, Da Jia, Lunzhi Dai, Lu Chen, Chong Chen, Yu Liu, Hengyi Xiao, Yan Zhang, Yuan Wang
Summary: Detecting and targeting precancerous cells in noncancerous tissues is a major challenge for cancer prevention. Researchers have developed two protein-level mutant p53 reporters that mimic the dynamics and function of mutant p53 proteins in vivo. Using these reporters, they have identified and traced rare precancerous clones in deep noncancerous tissues in various cancer models. The study reveals undercharacterized features and vulnerabilities of precancerous cells and provides insights for precision cancer prevention.
Article
Medicine, Research & Experimental
Bosi Dong, Ying Lu, Siyu He, Baichuan Li, Yajiao Li, Qi Lai, Wanling Li, Shuming Ji, Yucheng Chen, Lunzhi Dai, Lei Chen
Summary: Epley maneuver combined with canaloith repositioning procedure is an effective treatment for vertigo and dizziness, which can significantly improve the quality of life and treatment outcomes of patients and reduce the risk of canalith recurrence.
Review
Biochemistry & Molecular Biology
Xingpeng Di, Xiaoshuai Gao, Liao Peng, Jianzhong Ai, Xi Jin, Shiqian Qi, Hong Li, Kunjie Wang, Deyi Luo
Summary: Cellular mechanotransduction plays a critical role in converting mechanical signals to biochemical signals, regulating various biological processes. While mechanical cues can trigger beneficial processes, excessive stimulation can lead to pathological conditions. The regulatory mechanisms between different mechanical cues are not fully understood, and effective therapies targeting mechanical cue-related signaling are lacking.
SIGNAL TRANSDUCTION AND TARGETED THERAPY
(2023)
Article
Rheumatology
Tao Chen, Zhen Zhou, Minge Peng, Huifang Hu, Rui Sun, Jiayi Xu, Chenxi Zhu, Yanhong Li, Qiuping Zhang, Yubin Luo, Bin Yang, Lunzhi Dai, Yi Liu, Luis E. Munoz, Liesu Meng, Martin Herrmann, Yi Zhao
Summary: This study aims to identify hub genes in neutrophils for the diagnosis and treatment of rheumatoid arthritis (RA). The results showed that neutrophils in RA patients undergo transcriptional changes, affecting glycolysis, HIF-1 signaling, NADH metabolism, and oxidative stress. The hub gene GPX3, involved in neutrophil-driven oxidative stress-mediated pathogenesis, has the potential to be a target for RA therapy.
ARTHRITIS RESEARCH & THERAPY
(2023)
