In 2017, guidelines were published for reporting structural modelling of small-angle scattering (SAS) data from biomolecules in solution that exemplified best-practice documentation of experiments and analysis. Since then, there has been significant progress in SAS data and model archiving, and the IUCr journal editors announced that the IUCr biology journals will require the deposition of SAS data used in biomolecular structure solution into a public archive, as well as adherence to the 2017 reporting guidelines. In this context, the reporting template tables accompanying the 2017 publication guidelines have been reviewed with a focus on making them both easier to use and more general. With input from the SAS community via the IUCr Commission on SAS and attendees of the triennial 2022 SAS meeting (SAS2022, Campinas, Brazil), an updated reporting template table has been developed that includes standard descriptions for proteins, glycosylated proteins, DNA and RNA, with some reorganization of the data to improve readability and interpretation. In addition, a specialized template has been developed for reporting SAS contrast-variation (SAS-cv) data and models that incorporates the additional reporting requirements from the 2017 guidelines for these more complicated experiments. To demonstrate their utility, examples of reporting with these new templates are provided for a SAS study of a DNA-protein complex and a SAS-cv experiment on a protein complex. The examples demonstrate how the tabulated information promotes transparent reporting that, in combination with the recommended figures and additional information best presented in the main text, enables the reader of the work to readily draw their own conclusions regarding the quality of the data and the validity of the models presented.
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http://dx.doi.org/10.1107/S2059798322012141 | DOI Listing |
Sci Rep
January 2025
Department of pharmacy, Heze University, Heze, 274000, Shandong Province, China.
Progestogens commonly used in the clinic include levonorgestrel, etonogestrel, medroxyprogesterone, hydroxyprogesterone, progesterone, desogestrel, and megestrol. Progestogens are widely used for contraception and the treatment of endometriosis, threatened abortion and other diseases. However, the correlation between progestogen use and depression is not clear.
View Article and Find Full Text PDFEcotoxicol Environ Saf
January 2025
Guangxi Key Laboratory of Environmental Pollution Control Theory and Technology, Guilin University of Technology, Guilin 541004, China; Guangxi Collaborative Innovation Center for Water Pollution Control and Water Safety Guarantee in Karst Region.
The prevalence of nanoplastics (NPs) and sulfonamide antibiotics (SAs) in the aquatic environment is potentially harmful to the environment, and these pollutants are often present in the environment in the form of composite ones, thereby introducing more complex effects and hazards to the environment. Therefore, it is crucial to investigate the toxic effects of the individual target pollutants and their mixtures. In this study, we used Scenedesmus obliquus as the test organisms, two types of NPs: polystyrene (PS) and amine-modified (NH-PS), four SAs: sulfapyridine (SPY), sulfamethazine (SMR), sulfamethoxypyridazine (SMP), and sulfamethoxazole (SMZ), and their eight binary mixtures were examined.
View Article and Find Full Text PDFJ Patient Rep Outcomes
January 2025
IQVIA, Deerfield, IL, USA.
Purpose: Eosinophilic esophagitis (EoE), a chronic immune-mediated progressive disease, causes dysphagia, food impaction, abdominal pain, vomiting, and heartburn. EoE requires long-term monitoring and can affect quality of life owing to its symptoms and associated emotional and social burden. This study aimed to understand patients' experiences with EoE.
View Article and Find Full Text PDFNucleic Acids Res
January 2025
Department of Biological Sciences, Indian Institute of Science Education and Research (IISER) Mohali, Sector 81, Knowledge City, SAS Nagar, Mohali 140306, Punjab, India.
GntR/FadR family featuring an N-terminal winged helix-turn-helix DNA-binding domain and a C-terminal α-helical effector-binding and oligomerization domain constitutes one of the largest families of transcriptional regulators. Several GntR/FadR regulators govern the metabolism of sugar acids, carbon sources implicated in bacterial-host interactions. Although effectors are known for a few sugar acid regulators, the unavailability of relevant structures has left their allosteric mechanism unexplored.
View Article and Find Full Text PDFAlzheimers Dement
January 2025
CRBM UMR 5237 CNRS, Université Montpellier, Montpellier, France.
Introduction: The importance of protein amyloidogenesis, associated with various diseases and functional roles, has driven the creation of computational predictors of amyloidogenicity. The accuracy of these predictors, particularly those utilizing artificial intelligence technologies, heavily depends on the quality of the data.
Methods: We built Cross-Beta DB, a database containing high-quality data on known cross-β amyloids formed under natural conditions.
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