Editorial Material
Plant Sciences
Yusheng Zhao, Zhiyong Liu
Summary: Zhang et al. (2023) demonstrated through association analysis that the wheat E3 ubiquitin ligase TaAIRP2-1B positively regulates spike length by involving an upstream regulator, TaERF3, and a downstream target, TaHIPP3. This study provides a deeper understanding of spike architecture regulation and offers an alternative molecular module for designing wheat with increased yield potential.
JOURNAL OF EXPERIMENTAL BOTANY
(2023)
Review
Plant Sciences
Guoliang Han, Ziqi Qiao, Yuxia Li, Zongran Yang, Chengfeng Wang, Yuanyuan Zhang, Lili Liu, Baoshan Wang
Summary: RING zinc finger proteins play important roles in plant growth, development, and the response to abiotic stresses. They function as E3 ubiquitin ligases by modifying and degrading stress-related proteins in the cytoplasm and nucleus. Under abiotic stress, they may act as sensors or ABA receptors on the plasma membrane, or as transcription factors in the nucleus to regulate downstream gene expression.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Biochemistry & Molecular Biology
James Ross Terrell, Sijia Tang, Oluwafoyinsola Omobodunde Faniyi, In Ho Jeong, Jun Yin, Bhavitavya Nijampatnam, Sadanandan E. Velu, Wei Wang, Ruiwen Zhang, Ming Luo
Summary: Mouse double minute 2 homolog (MDM2) is an E3 ubiquitin-protein ligase that is involved in ubiquitin transfer and is elevated in cancer cells. This study solved crystal structures of MDM2 RING domain in complex with inhibitors Inulanolide A and MA242. The inhibitors bind at the C-terminus of MDM2 RING domain and disrupt interactions with the E2-Ubiquitin complex, inhibiting ubiquitin transfer for a broad spectrum of substrates.
Review
Biochemistry & Molecular Biology
Tianyuan Xie, Hai Qin, Zhengdong Yuan, Yiwen Zhang, Xiaoman Li, Lufeng Zheng
Summary: RING finger protein 168 (RNF168) is an E3 ubiquitin ligase that plays an important role in the DNA double-strand damage repair pathway. It has been found to be significantly involved in the occurrence and development of various cancers. Furthermore, RNF168 contributes to tumor cell drug resistance by enhancing DNA repair ability and regulating protein degradation. This paper summarizes and prospects the research progress of RNF168's structure, main functions, and its roles and mechanisms in tumorigenesis.
Article
Physiology
Gustavo R. Ares
Summary: This study found that cGMP mediates the ubiquitination of NKCC2 through the cullin-RING E3 ubiquitin ligase complex, thus regulating surface NKCC2 levels and reducing the reabsorption of sodium chloride. This finding provides new targets for the regulation of NKCC2 expression and activity.
AMERICAN JOURNAL OF PHYSIOLOGY-RENAL PHYSIOLOGY
(2023)
Review
Virology
Chunfu Zheng, Yan-Dong Tang
Summary: MARCH proteins play critical roles in viral infections by directly antagonizing different steps of the viral life cycle and promoting viral infection.
Article
Plant Sciences
Jinhao Sun, Cuiling Yuan, Meng Wang, Anming Ding, Guohua Chai, Yuhe Sun, Gongke Zhou, Dahai Yang, Yingzhen Kong
Summary: In this study, the regulatory mechanisms of pectin demethylesterification were investigated, revealing that the mud1 Arabidopsis mutant has increased mucilage adherence due to increased PMEs activities and decreased DM. It was suggested that MUD1 may act as an ubiquitin ligase to regulate the DM of pectin by post-transcriptionally removing proteins that negatively regulate PMEs in seed coat mucilage.
PLANT PHYSIOLOGY AND BIOCHEMISTRY
(2021)
Review
Biochemistry & Molecular Biology
J. Wade Harper, Brenda A. Schulman
Summary: Cullin-RING ubiquitin ligases (CRLs) are modular platforms that regulate biological processes by ubiquitylating specific targets. Regulation is achieved through dynamic control of activation and substrate ubiquitylation, and CRLs provide a vast landscape for developing small molecules that reshape interactions and promote targeted turnover of proteins. Ultimately, the dynamics of substrate receptor interchange in CRLs drive the turnover of selected proteins to influence cellular decision-making.
ANNUAL REVIEW OF BIOCHEMISTRY, VOL 90, 2021
(2021)
Review
Biochemistry & Molecular Biology
Alberto Coego, Jose Julian, Jorge Lozano-Juste, Gaston A. Pizzio, Abdulwahed F. Alrefaei, Pedro L. Rodriguez
Summary: Post-translational modifications, particularly protein ubiquitylation, play a crucial role in regulating protein function and stability in various aspects of plant biology. Ubiquitin code not only targets substrates for proteolytic degradation but also regulates protein interactions, activity, and localization through nonproteolytic functions. This review focuses on the ubiquitylation of ABA receptors and PP2C coreceptors, as well as other post-translational modifications of ABA receptors that lead to their ubiquitination and degradation.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Plant Sciences
Huimin Sun, Jiatao Li, Xu Li, Qian Lv, Liuping Chen, Bingxin Wang, Liqun Li
Summary: TaSADR1 gene was found to negatively regulate drought stress response in wheat and achieved this function by regulating the expression of stress-related genes.
PLANT PHYSIOLOGY AND BIOCHEMISTRY
(2022)
Review
Genetics & Heredity
Xiaoxue Chai, Qian Tao, Lili Li
Summary: This review highlights the pivotal role of RING finger proteins in chromatin remodeling, including their E3 ubiquitin ligase activities, modulation of ATP-dependent chromatin remodeling complexes, and interaction with histone post-translational modifications. The diverse biological effects of RING finger protein-mediated chromatin remodeling are discussed, along with potential therapeutic strategies for targeting these proteins.
Article
Agronomy
Daijing Zhang, Xiaoxu Zhang, Wu Xu, Tingting Hu, Jianhui Ma, Youfu Zhang, Jian Hou, Chenyang Hao, Xueyong Zhang, Tian Li
Summary: This study identified TaGW2L as a novel positive regulator of heading date in wheat. TaGW2L exhibited similar functions to TaGW2 and its overexpression led to an earlier heading date in wheat. This study sheds light on the role of TaGW2L in wheat heading date and provides potential applications for crop improvement.
Article
Biochemistry & Molecular Biology
Pian Liu, Wei Zhou, Liu Yang, Chen Zhang
Summary: The study reveals that RNF180 degrades RAD51 by ubiquitination, inhibiting the growth and metastasis of TNBC cells and sensitizing them to Gef.
CHEMICO-BIOLOGICAL INTERACTIONS
(2022)
Article
Biochemistry & Molecular Biology
Orsolya Bilkei-Gorzo, Tiaan Heunis, Jose Luis Marin-Rubio, Francesca Romana Cianfanelli, Benjamin Bernard Armando Raymond, Joseph Inns, Daniela Fabrikova, Julien Peltier, Fiona Oakley, Ralf Schmid, Anetta Hartlova, Matthias Trost
Summary: This study reveals the importance of phagosomal ubiquitylation and the E3 ubiquitin ligase RNF115 in regulating innate immune functions during bacterial infections.
Article
Biochemistry & Molecular Biology
Kaeli A. Welsh, Derek L. Bolhuis, Anneroos E. Nederstigt, Joshua Boyer, Brenda R. S. Temple, Thomas Bonacci, Li Gu, Alban Ordureau, J. Wade Harper, Joshua P. Steimel, Qi Zhang, Michael J. Emanuele, Joseph S. Harrison, Nicholas G. Brown
Summary: Polyubiquitination mediated by E2 and E3 enzymes is essential for cell cycle control, epigenetic regulation, and development. The helix-turn-helix (HTH) motif of the UBC has been shown to regulate the intrinsic polyubiquitination activity in different E2s, with distinct functions observed in UBE2S and UBE2R2. The repurposing of the E2(HTH) motif in these proteins suggests a new mechanism for modulating ubiquitin transfer and highlights the potential for additional regulation in E2-E3-mediated polyubiquitination.
Article
Virology
Dawei Zhou, Yan Wang, Kenzo Tokunaga, Fang Huang, Binlian Sun, Rongge Yang
Article
Virology
Yanling Yan, Fang Huang, Ting Yuan, Binlian Sun, Rongge Yang
Article
Biochemistry & Molecular Biology
Fang Huang, Wei Shao, Koh Fujinaga, B. Matija Peterlin
JOURNAL OF BIOLOGICAL CHEMISTRY
(2018)
Article
Biochemistry & Molecular Biology
Hui Qiu, Fang Huang, Jian Gong, Han Xiao, Bin-Lian Sun, Rong-Ge Yang
JOURNAL OF RECEPTORS AND SIGNAL TRANSDUCTION
(2015)
Article
Multidisciplinary Sciences
Ting Yuan, Weitong Yao, Fang Huang, Binlian Sun, Rongge Yang
Article
Virology
Chao Chen, Dan Pan, A-Mei Deng, Fang Huang, Bin-Lian Sun, Rong-Ge Yang
Article
Microbiology
Marie Leoz Petra Kukanja, Zeping Luo, Fang Huang, Daniele C. Cary, B. Matija Peterlin, Koh Fujinaga
Article
Biology
Fang Huang, Trang T. T. Nguyen, Ignacia Echeverria, Rakesh Ramachandran, Daniele C. Cary, Hana Paculova, Andrej Sali, Arthur Weiss, Boris Matija Peterlin, Koh Fujinaga
Summary: Research has found that in quiescent and terminally differentiated cells, CycT1 not bound to CDK9 is rapidly degraded. Additionally, PKC-mediated phosphorylation of CycT1 increases productive CycT1:CDK9 interactions in human cells. Conversely, dephosphorylation of CycT1 by PP1 reverses this process.
Article
Biochemistry & Molecular Biology
Fang Huang, Yongmei Feng, B. Matija Peterlin, Koh Fujinaga
Summary: This study identified the mechanism of CycT1 degradation in resting cells, pinpointing the ubiquitination and degradation region as well as the role of E3 ligases Siah1 and Siah2 in this process.
NUCLEIC ACIDS RESEARCH
(2022)
Article
Immunology
Fang Huang, Weitong Yao, Binlian Sun, Koh Fujinaga
Summary: DCAF1 is a crucial subunit of E3 ligases and is involved in various cellular processes. It binds to the viral protein R (Vpr) of HIV-1 and plays essential roles in Vpr functions. Our study reveals that DCAF1 is necessary for NF-kappa B activation by virion-associated Vpr proteins and exogenous DCAF1 can inhibit NF-kappa B induction by external stimuli. Furthermore, we find that DCAF1 inhibits the nuclear transportation of p65 through interactions with p65, thus suppressing the NF-kappa B pathway. Additionally, two specific motifs of DCAF1 are identified to enhance its inhibitory effects on the NF-kappa B pathway.
IMMUNOLOGY LETTERS
(2022)
Review
Biochemistry & Molecular Biology
Koh Fujinaga, Fang Huang, B. Matija Peterlin
Summary: The positive transcription elongation factor b (P-TEFb) is a complex of cyclins T1 or T2 and cyclin-dependent kinase 9 that regulate transcription elongation by RNA polymerase II. It promotes the elongation and processing of nascent transcripts by antagonizing negative elongation factors and phosphorylating RNA polymerase II. Dysregulation of P-TEFb contributes to inflammatory and neoplastic conditions, highlighting its importance in gene expression regulation.
Article
Virology
Qiong Yu, Xi Tong, Li Zuo, Xinyu Tao, Zhonghui Xu, Xiaocui Li, Haizhou Liu, Wuxiang Guan, Di Liu, Haibin Liu, Fang Huang, Lijia Jia
Summary: The emergence of new variants of SARS-CoV-2 has made the global COVID-19 pandemic unpredictable. Densely populated regions in South and Southeast Asia have experienced multiple COVID-19 surges and faced shortages of vaccines and medical resources. Therefore, closely monitoring the epidemic and understanding the evolution and transmission of SARS-CoV-2 in these regions is crucial.
Article
Biochemistry & Molecular Biology
Soojung Hahn, Gyuri Kim, Sang-Man Jin, Jae Hyeon Kim
Summary: This study utilized three-dimensional intestinal organoids to investigate the effects of metformin on inflammatory bowel disease (IBD) and found that metformin can enhance intestinal barrier function and reduce levels of inflammatory cytokines.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
V. V. Sudarev, M. S. Gette, S. V. Bazhenov, O. M. Tilinova, E. V. Zinovev, I. V. Manukhov, A. I. Kuklin, Yu. L. Ryzhykau, A. V. Vlasov
Summary: This study investigated the self-assembly processes of ferritin-based protein complexes and obtained structurally characterized oligomeric states. These results provide new potential and opportunities for the application of ferritin in various fields.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Yalda Sabaghi, Farnaz Pourfarzad, Leila Zolghadr, Azita Bahrami, Tahereh Shojazadeh, Alireza Farasat, Nematollah Gheibi
Summary: p-Coumaric acid (p-CA) is a plant compound with anti-cancer activities. This study designed a nano-liposomal carrier containing p-CA to enhance its effectiveness against melanoma cells. The findings showed that the liposomal form of p-CA had a greater impact on the cells. Kinetic modeling indicated that the best fitting model was zero-order.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
M. D. Nazmul Hasan, Md Mahfuzur Rahman, Al Asmaul Husna, Nobuhiro Nozaki, Osamu Yamato, Naoki Miura
Summary: This study investigated the expression of ncRNAs other than miRNAs in different histologic subtypes of canine mammary gland tumors (MGT). Three aberrantly expressed ncRNAs were identified as potential biomarkers for differentiating MGT subtypes. YRNA and tRFs expression levels were found to be decreased in metastatic compared to primary MGT cell lines.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Seine A. Shintani
Summary: In this study, the researchers used signal analysis to study the instantaneous amplitude and phase of sarcomeric oscillations in skeletal muscle. They identified two types of oscillations, sarcomeric oscillations and sarcosynced oscillations, and visualized their behavior during propagating waves. The researchers discovered the presence of sarcomeric defect holes and sarcomeric collision holes, which are important indicators for understanding the oscillation properties of sarcomeres. This finding has important implications for improving our understanding of muscle function and its regulatory mechanisms.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Shuanglin Zhang, Yuzhong Jia, Guolan Ma, Yanyan Yang, Zhenzhen Cao, Antao Luo, Zefu Zhang, Shihan Li, Jie Wen, Hanfeng Liu, Jihua Ma
Summary: Bupleurum is an antiarrhythmic agent that may exert its effects by inhibiting L-type calcium channels.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Tomotaka Ohkubo, Yasuhiko Matsumoto, Hiroaki Sasaki, Kaoru Kinoshita, Yuki Ogasawara, Takashi Sugita
Summary: This study found that Citrobacter koseri inhibits the growth of Staphylococcus epidermidis, disrupting the balance between S. epidermidis and Staphylococcus aureus, and exacerbating inflammation in atopic dermatitis.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Toshifumi Asano, Philipp Sasse, Takao Nakata
Summary: A Cre recombination-based fluorescent reporter system was developed to monitor cell-cell fusion. The system successfully detected the formation of multinuclear myotubes and placental syncytiotrophoblast. This tool could facilitate the study of cell-to-cell fusion.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Ke Shi, Yunlong Shan, Xiao Sun, Kuida Chen, Qiong Luo, Qiang Xu
Summary: This study found that low expression of TP53INP2 is associated with poor survival in colorectal cancer (CRC) patients. As the malignancy of CRC progresses, TP53INP2 expression gradually decreases. Knockdown of TP53INP2 promotes CRC cell proliferation and tumor growth. Mechanistically, TP53INP2 deficiency decreases phosphorylation of beta-catenin, leading to increased accumulation and enhanced nuclear translocation and transcriptional activity. Additionally, TP53INP2 sequesters TIM50, inhibiting its activation of beta-catenin. In conclusion, downregulation of TP53INP2 promotes CRC progression by activating beta-catenin.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Martina Rossi, Fabio Tomaselli, Alejandro Hochkoeppler
Summary: Oligomeric enzymes are known for their higher catalytic rates compared to monomeric enzymes, but the extent of additivity in their activity is still not well understood. This study used tetrameric rabbit lactate dehydrogenase as a model to examine the kinetics of its catalytic action. Surprisingly, when the concentration of the limiting reactant exceeded that of a single subunit, there was a significant slowdown in the enzyme's conformational rearrangements.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Amin Sahraei, Mohammad Javad Shamsoddini, Fakhrossadat Mohammadi, Leila Hassani
Summary: This study explored the inhibitory effects of gallium curcumin, indium curcumin, and vanadyl curcumin on the amyloid fibrillation of hen egg white lysozyme, as well as the binding interactions of these metal complexes with the enzyme. The results showed that indium curcumin and vanadyl curcumin exhibited higher binding affinities and stronger inhibitory effects on amyloid fibrillation compared to gallium curcumin.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Takahiro Sasaki, Yoshiki Kuse, Shinsuke Nakamura, Masamitsu Shimazawa
Summary: PGRN deficiency plays a significant role in cardiac remodeling and arrhythmias post-myocardial infarction (MI), potentially by promoting metabolic abnormalities in macrophages.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Hongwei Zhao, Yiqiang Li, Yibo Zhang, Chi Zhang
Summary: Electrical brain stimulation technology is commonly used to treat brain neurological disorders, but it can cause side effects. This study investigated the impact of electric fields on nerve fibers and revealed the possible origin of side effects. The findings provide guidance for selecting electrical parameters in clinical stimulation therapy.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Julia S. Scott, Lake-Ee Quek, Andrew J. Hoy, Johannes V. Swinnen, Zeyad D. Nassar, Lisa M. Butler
Summary: The fatty acid elongation enzyme ELOVL5 plays a critical role in promoting metastasis in prostate cancer. Knocking down ELOVL5 leads to the accumulation of malonyl-CoA, which inhibits fatty acid oxidation in mitochondria. This study highlights the importance of fatty acid elongation in regulating cell viability and provides a potential target for prostate cancer treatment.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Zan Zhou, Wen-jun Jiang, Li Li, Jun-qiang Si
Summary: This study investigates the effect of noise exposure on cognitive function in mice and explores the underlying molecular mechanisms. The findings suggest that noise exposure leads to increased inflammation, increased phosphorylation of Tau protein, and decreased levels of postsynaptic density protein, resulting in cognitive impairment.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)