ArticleBeilstein journal of organic chemistry2020
Leveraging glycomics data in glycoprotein 3D structure validation with Privateer.
Article in Beilstein journal of organic chemistry, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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15 citing papers in PubMed.
- Online carbohydrate 3D structure validation with the Privateer web app.Acta crystallographica. Section F, Structural biology communications · 2024Article
- Role of Artificial Intelligence in Drug Discovery and Target Identification in Cancer.Current drug delivery · 2024Review
- Monitoring carbohydrate 3D structure quality with theBeilstein journal of organic chemistry · 2024Article
- Analysis and validation of overall N-glycan conformation in Privateer.Acta crystallographica. Section D, Structural biology · 2023Article
- The CCP4 suite: integrative software for macromolecular crystallography.Acta crystallographica. Section D, Structural biology · 2023Article
- Overview and applications of map and model validation tools in the CCP-EM software suite.Faraday discussions · 2022Review
- Native glycosylation and binding of the antidepressant paroxetine in a low-resolution crystal structure of human myeloperoxidase.Acta crystallographica. Section D, Structural biology · 2022Article
- Cryo-EM reveals mechanisms of angiotensin I-converting enzyme allostery and dimerization.The EMBO journal · 2022Article
- GlyNet: a multi-task neural network for predicting protein-glycan interactions.Chemical science · 2022Article
- Updated restraint dictionaries for carbohydrates in the pyranose form.Acta crystallographica. Section D, Structural biology · 2022Article
- Current status of PTMs structural databases: applications, limitations and prospects.Amino acids · 2022Review
- Towards Consistency in Geometry Restraints for Carbohydrates in the Pyranose form: Modern Dictionary Generators Reviewed.Current medicinal chemistry · 2022Article
- GlycoBioinformatics.Beilstein journal of organic chemistry · 2021Article
- GAG-DB, the New Interface of the Three-Dimensional Landscape of Glycosaminoglycans.Biomolecules · 2020Article
- Three-Dimensional Structures of Carbohydrates and Where to Find Them.International journal of molecular sciences · 2020Review
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3 authors.
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Abstract
The heterogeneity, mobility and complexity of glycans in glycoproteins have been, and currently remain, significant challenges in structural biology. These aspects present unique problems to the two most prolific techniques: X-ray crystallography and cryo-electron microscopy. At the same time, advances in mass spectrometry have made it possible to get deeper insights on precisely the information that is most difficult to recover by structure solution methods: the full-length glycan composition, including linkage details for the glycosidic bonds. The developments have given rise to glycomics. Thankfully, several large scale glycomics initiatives have stored results in publicly available databases, some of which can be accessed through API interfaces. In the present work, we will describe how the Privateer carbohydrate structure validation software has been extended to harness results from glycomics projects, and its use to greatly improve the validation of 3D glycoprotein structures.
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