Potential Role of ANGPTL4 in the Cross Talk between Metabolism and Cancer through PPAR Signaling Pathway by Laura La Paglia, Angela Listì, Stefano Caruso, Valeria Amodeo, Francesco Passiglia, Viviana Bazan, Daniele Fanale

“…The angiopoietin-like 4 (ANGPTL4) protein belongs to a superfamily of secreted proteins structurally related to factors modulating angiogenesis known as angiopoietins. …”
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Genome-Wide Study of Plant-Specific PLATZ Transcription Factors and Functional Analysis of <i>OsPLATZ1</i> in Regulating Caryopsis Development of Rice (<i>Oryza sativa</i> L.) by Tao Yang, Xin-Tong Xu, Li-Jun Tang, Wen-Tao Wei, Yuan-Yuan Zhao, Jin-Xin Liu, Xue-Feng Yao, Heng Zhao, Chun-Ming Liu, Ai-Ning Bai

“…An analysis of protein structures and sequence motifs showed that OsPLATZs were similar within groups, but varied between them. …”
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ИССЛЕДОВАНИЯ ВЛИЯНИЯ ТЕРМИЧЕСКИХ ОБРАБОТОК НА ПОКАЗАТЕЛИ КАЧЕСТВА ИГРИСТЫХ ВИН by Татьяна Александровна Дроздова, Наталья Михайловна Агеева, Максим Витальевич Поспелов

“…This value was achieved due to the breakdown of protein structures of the yeast cell and increased activity of hydrolytic enzymes, which contributed to an increase in the concentration of amine nitrogen from 157.5 to 161.0 mg/dm3, which are surfactants. …”
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Proteome-Wide Identification and Comparison of Drug Pockets for Discovering New Drug Indications and Side Effects by Renxin Zhang, Zhiyuan Chen, Shuhan Li, Haohao Lv, Jinjun Li, Naixue Yang, Shaoxing Dai

“…We identified 15,043 druggable pockets in 20,255 predicted protein structures, significantly expanding the estimated druggable proteome from 3000 to over 11,000 proteins. …”
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Effects of screw configuration and interfacial properties on oil incorporation in high moisture extrusion by Shuzo Hashimoto, Naoya Ikenaga, Atze Jan van der Goot, Leonard M.C. Sagis

“…Less deformation of the air pockets between protein structures could be seen in the screw with fewer kneading discs in multiphoton microscopy. …”
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Impact of Obesity-Associated SARS-CoV-2 Mutations on COVID-19 Severity and Clinical Outcomes by Ana B. Martínez-Martinez, Alexander Tristancho-Baró, Beatriz Garcia-Rodriguez, Marina Clavel-Millan, Maria Pilar Palacian, Ana Milagro, Antonio Rezusta, Jose M. Arbones-Mainar

“…Interestingly, all three mutations were synonymous, suggesting adaptive roles in obesity-driven environments despite not altering viral protein structures. These results emphasize the importance of studying mutations within the broader context of comorbidities, other mutations, and regional factors to enhance our understanding of SARS-CoV-2 adaptation in high-risk groups. …”
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Comparative analysis of HKTs in six poplar species and functional characterization of PyHKTs in stress-affected tissues by Xiaojiao Liu, Lincui Shi, Hezi Bai, Jing Wang, Anmin Yu, Aizhong Liu, Ping Li

“…Poplar HKTs can be classified into two subgroups on the basis of their physiological relationships and distinct protein structures. Gene expression pattern analysis revealed that poplar HKTs presented relatively high expression levels in roots and stems under salt stress. …”
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Recent advancements in the diverse roles of polymerase-associated proteins in the replication and pathogenesis of Newcastle disease virus by Jinghang Zhou, Yuqi Duan, Menglan Liu, Jinyang Liu, Zenglei Hu, Zhiqiang Duan

“…Despite significant progress in understanding the unique and shared functions of NDV polymerase-associated proteins, research on these viral proteins’ structure and function is less comprehensive than other NDV proteins, and the available information is often scattered. …”
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Six Novel ATM Gene Variants in Sri Lankan Patients with Ataxia Telangiectasia by D. Hettiarachchi, Hetalkumar Panchal, B. A. P. S. Pathirana, P. D. Rathnayaka, A. Padeniya, P. S. Lai, V. H. W. Dissanayake

“…Variant analysis was followed by modeling of the native and altered protein structures. Conclusion. We report novel ATM gene variants that have implications on the molecular diagnosis of ataxia telangiectasia.…”
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GS-DTA: integrating graph and sequence models for predicting drug-target binding affinity by Junwei Luo, Ziguang Zhu, Zhenhan Xu, Chuanle Xiao, Jingjing Wei, Jiquan Shen

“…In addition, when dealing with protein structures, some methods ignore the connections between amino acid fragments that are far apart in sequence but may work synergistically in function. …”
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Protein identification using Cryo-EM and artificial intelligence guides improved sample purification by Kenneth D. Carr, Dane Evan D. Zambrano, Connor Weidle, Alex Goodson, Helen E. Eisenach, Harley Pyles, Alexis Courbet, Neil P. King, Andrew J. Borst

“…Protein purification is essential in protein biochemistry, structural biology, and protein design, enabling the determination of protein structures, the study of biological mechanisms, and the characterization of both natural and de novo designed proteins. …”
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A missense variant in the SOX5 gene (c.221C > T) is associated with intellectual disability by Xiujuan Yang, Zhongzhi Gan, Xiaoling Guo, Xiang Huang, Juan Liu, Yingchun Zheng, Xiaoqiang Zhou, Jingli Lian, Yue Liu, Tingting Yang, Chao Li, Fenying Chen, Fei He, Xiangmin Xu, Yasi Zhou, Qian Liu, Xingkun Yang, Fu Xiong

“…Additionally, protein stability was evaluated using I-Mutant, and 3D protein structures were modeled with I-TASSER. Western blots and QPCR were employed to assess gene expression and protein stability. …”
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Investigating the triple-frequency ultrasound-assisted fermented rice lees: Impact on physicochemical, structural, morphological, and metabolic properties by Mian Shamas Murtaza, Sanabil Yaqoob, Bismillah Mubeen, Aysha Sameen, Mian Anjum Murtaza, Abdur Rehman, Tawfiq Alsulami, Sameh A. Korma, Ibrahim Khalifa, Yong Kun Ma

“…Moreover, SEM observation provides convincing evidence that TFUT improves and speeds up the breakdown of proteins’ structures, resulting in irregular and dense structures. …”
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Genome-wide identification of MGT gene family in soybean (Glycine max) and their expression analyses under magnesium stress conditions by Ammar Anwar, Junaid Akhtar, Saba Aleem, Maida Aleem, Muhammad Khuram Razzaq, Saud Alamri, Qasim Raza, Iram Sharif, Arooj Iftikhar, Shehreen Naseer, Zaheer Ahmed, Iqrar Ahmed Rana, Waheed Arshad, Muhammad Imran Khan, Javaid Akhter Bhat, Muqadas Aleem, Abdel-Rhman Z. Gaafar, Mohamed S. Hodhod

“…Conclusion This study presents a comprehensive analysis of the MGT gene family in soybean, providing insights into their evolutionary relationships, gene classification, protein structures, and expression patterns under both Mg deficiency and Mg surplus conditions.…”
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Deciphering the role of metal ion transport-related genes in T2D pathogenesis and immune cell infiltration via scRNA-seq and machine learning by Zuhui Pu, Zuhui Pu, Tony Bowei Wang, Ying Lu, Ying Lu, Zijing Wu, Zijing Wu, Yuxian Chen, Ziqi Luo, Xinyu Wang, Lisha Mou, Lisha Mou

“…Additionally, we performed a detailed cell-cell communication analysis to identify significant signaling pathways in T2D.ResultsOur analysis identified 1953 DEGs between T2D and ND patients, with the Stepglm[backward] plus GBM model demonstrating high predictive accuracy and identifying 13 hub RMITRGs. Twelve protein structures were predicted using AlphaFold 3, revealing potential functional conformations. …”
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Literature study of Zn supplementation in feed for optimizing Nile tilapia Oreochromis niloticus growth by Muhammad Agus Suprayudi, Hendri Inarto, Julie Ekasari

“… Micro minerals play a crucial role in the physiological processes of fish, acting as enzyme cofactors and stabilizing enzyme and protein structures. One of the essential micro minerals needed in the body is zinc (Zn). …”
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Near telomere-to-telomere genome assemblies of Silkie Gallus gallus and Mallard Anas platyrhynchos restored the structure of chromosomes and “missing” genes in birds by Qiangsen Zhao, Zhongtao Yin, Zhuocheng Hou

“…Finally, we recovered 325 missing genes via our new genomes and annotated TNFA in Mallard for the first time, revealing conserved protein structures and tissue-specific expression. Conclusions The near telomere-to-telomere assemblies in Mallard and Silkie, with the first gap-free sex chromosomes in ducks, significantly enhanced our understanding of genetic structures in birds, specifically highlighting the distinctive chromosome features between the chicken and duck genomes. …”
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Acetylation of proximal cysteine-lysine pairs by alcohol metabolism by Courtney D. McGinnis, Peter S. Harris, Brenton I.M. Graham, John O. Marentette, Cole R. Michel, Laura M. Saba, Richard Reisdorph, James R. Roede, Kristofer S. Fritz

“…Interrogating both cysteine redox and lysine acetylation datasets, 1280 protein structures generated by AlphaFold2 represented by a 3D spatial matrix were used to quantify the distances between 557,815 cysteine and lysine residues. …”
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AlphaFold-based AI docking reveals AMPK/SIRT1-TFEB pathway modulation by traditional Chinese medicine in metabolic-associated fatty liver disease by Lulu Zhang, Yi Zheng, Mingyan Shao, Aiping Chen, Meiyi Liu, Wenlong Sun, Tianxing Li, Yini Fang, Yang Dong, Shipeng Zhao, Hui Luo, Juan Feng, Qi Wang, Lingru Li, Yanfei Zheng

“…This study investigated QGJZF’s effects in high-fat diet-induced zebrafish and golden hamsters, and in palmitate (PA) and oleic acid (OA) - induced HepG2 cells, using the SymMap database to identify potential targets and pathways of QGJZF in MAFLD and AlphaFold algorithms to predict protein structures. In vivo, QGJZF significantly alleviated hepatic lipid deposition. …”
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Low Frequency of MKRN3 and DLK1 Variants in Chinese Children with Central Precocious Puberty by Ting Chen, Linqi Chen, Haiying Wu, Rongrong Xie, Fengyun Wang, Xiuli Chen, Hui Sun, Fei Xiao

“…We also performed bioinformatic analysis to evaluate the impact of variants on MKRN3 protein structures, which showed that Ile357Met locates at the zinc-binding region (C3HC4 RING finger motif), while Glu380Lys is spatially extremely close to the C3HC4 RING finger, MKRN-specific Cys-His domain, and the third C3H1 zinc-finger motif region. …”
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