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2017 publication guidelines for structural modelling of small-angle scattering data from biomolecules in solution: an update.

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TLDR
Updated guidelines are presented for publishing biomolecular small-angle scattering (SAS) experiments so that readers can independently assess the quality of the data and models presented.
Abstract
In 2012, preliminary guidelines were published addressing sample quality, data acquisition and reduction, presentation of scattering data and validation, and modelling for biomolecular small-angle scattering (SAS) experiments. Biomolecular SAS has since continued to grow and authors have increasingly adopted the preliminary guidelines. In parallel, integrative/hybrid determination of biomolecular structures is a rapidly growing field that is expanding the scope of structural biology. For SAS to contribute maximally to this field, it is essential to ensure open access to the information required for evaluation of the quality of SAS samples and data, as well as the validity of SAS-based structural models. To this end, the preliminary guidelines for data presentation in a publication are reviewed and updated, and the deposition of data and associated models in a public archive is recommended. These guidelines and recommendations have been prepared in consultation with the members of the International Union of Crystallography (IUCr) Small-Angle Scattering and Journals Commissions, the Worldwide Protein Data Bank (wwPDB) Small-Angle Scattering Validation Task Force and additional experts in the field.

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Citations
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Protein crystallization promotes type 2 immunity and is reversible by antibody treatment.

TL;DR: Recombinant Gal10 crystals were produced that were structurally and biochemically similar to CLCs obtained from patients with rhinosinusitis and asthma and generated antibodies against crystalline Gal10, suggesting a potential therapeutic approach for crystallopathies more broadly.
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Consensus Bayesian assessment of protein molecular mass from solution X-ray scattering data.

TL;DR: A Bayesian inference approach was developed affording an accuracy above that of the individual methods, and reports MM estimates together with a credibility interval, that can be used in combination with concentration-dependent MM methods to further validate the MM of proteins in solution, or as a reliable stand-alone tool in instances where an accurate concentration estimate is not available.
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SASBDB: Towards an automatically curated and validated repository for biological scattering data

TL;DR: The overall organization and procedures of SASBDB are described, paying most attention to user‐relevant information during submission, which is a comprehensive, free and searchable repository of SAS experimental data and models deposited together with the relevant experimental conditions, sample details and instrument characteristics.
Journal ArticleDOI

Evolving SAXS versatility: solution X-ray scattering for macromolecular architecture, functional landscapes, and integrative structural biology.

TL;DR: Evaluating SAXS theory, methods, and applications that extend the field of small-angle scattering beyond simple shape characterization are discussed, including its potential for illuminating cellular supramolecular and mesoscale structures, and its capacity to complement high-throughput bioinformatics sequencing data.
Journal ArticleDOI

Molecular mechanism of influenza A NS1-mediated TRIM25 recognition and inhibition.

TL;DR: These structures show that binding of NS1 interferes with the correct positioning of the PRYSPRY domain of TRIM25 required for substrate ubiquitination and provide a mechanistic explanation for how NS1 suppresses RIG-I ubiquitinations and hence downstream signalling.
References
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Book

Small Angle X-Ray Scattering

Journal ArticleDOI

Determination of the regularization parameter in indirect-transform methods using perceptual criteria

TL;DR: In this paper, a method is proposed for the determination of the optimum value of the regularization parameter (Lagrange multiplier) when applying indirect transform techniques in small-angle scattering data analysis.
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CRYSOL : a program to evaluate X-ray solution scattering of biological macromolecules from atomic coordinates

TL;DR: In this paper, a program for evaluating the solution scattering from macromolecules with known atomic structure is presented, which uses multipole expansion for fast calculation of the spherically averaged scattering pattern and takes into account the hydration shell.
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PRIMUS: a Windows PC-based system for small-angle scattering data analysis

TL;DR: A program suite for one-dimensional small-angle scattering data processing running on IBM-compatible PCs under Windows 9x/NT/2000/XP is presented and PRIMUS enables model-independent singular value decomposition or linear fitting if the scattering from the components is known.
Journal ArticleDOI

Restoring low resolution structure of biological macromolecules from solution scattering using simulated annealing.

TL;DR: Application of the method is illustrated by the restoration of a ribosome-like model structure and more realistically by the determination of the shape of several proteins from experimental x-ray scattering data.
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