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      NGL viewer: web-based molecular graphics for large complexes

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          There is no author summary for this article yet. Authors can add summaries to their articles on ScienceOpen to make them more accessible to a non-specialist audience.

          Abstract

          The interactive visualization of very large macromolecular complexes on the web is becoming a challenging problem as experimental techniques advance at an unprecedented rate and deliver structures of increasing size.

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          The Protein Data Bank.

          H M Berman, J Westbrook, Z. Feng … (2000)
          The Protein Data Bank (PDB; http://www.rcsb.org/pdb/ ) is the single worldwide archive of structural data of biological macromolecules. This paper describes the goals of the PDB, the systems in place for data deposition and access, how to obtain further information, and near-term plans for the future development of the resource.
          Article 0 comments Cited 3633 times – based on 0 reviews     Review now
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            The RCSB protein data bank: integrative view of protein, gene and 3D structural information

            Peter W Rose, Andreas Prlić, Ali Altunkaya … (2016)
            The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB, http://rcsb.org), the US data center for the global PDB archive, makes PDB data freely available to all users, from structural biologists to computational biologists and beyond. New tools and resources have been added to the RCSB PDB web portal in support of a ‘Structural View of Biology.’ Recent developments have improved the User experience, including the high-speed NGL Viewer that provides 3D molecular visualization in any web browser, improved support for data file download and enhanced organization of website pages for query, reporting and individual structure exploration. Structure validation information is now visible for all archival entries. PDB data have been integrated with external biological resources, including chromosomal position within the human genome; protein modifications; and metabolic pathways. PDB-101 educational materials have been reorganized into a searchable website and expanded to include new features such as the Geis Digital Archive.
            Article 0 comments Cited 292 times – based on 0 reviews     Review now
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              NGL Viewer: a web application for molecular visualization

              Alexander Rose, Peter W. Hildebrand (2015)
              The NGL Viewer (http://proteinformatics.charite.de/ngl) is a web application for the visualization of macromolecular structures. By fully adopting capabilities of modern web browsers, such as WebGL, for molecular graphics, the viewer can interactively display large molecular complexes and is also unaffected by the retirement of third-party plug-ins like Flash and Java Applets. Generally, the web application offers comprehensive molecular visualization through a graphical user interface so that life scientists can easily access and profit from available structural data. It supports common structural file-formats (e.g. PDB, mmCIF) and a variety of molecular representations (e.g. ‘cartoon, spacefill, licorice’). Moreover, the viewer can be embedded in other web sites to provide specialized visualizations of entries in structural databases or results of structure-related calculations.
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                Author and article information

                Contributors
                Alexander S Rose: (View ORCID Profile)
                Yana Valasatava: (View ORCID Profile)
                Peter W Rose: (View ORCID Profile)
                Journal
                Title: Bioinformatics
                Publisher: Oxford University Press (OUP)
                ISSN (Print): 1367-4803
                ISSN (Electronic): 1460-2059
                Publication date Created: November 01 2018
                Publication date Created: November 01 2018
                Publication date Created: May 29 2018
                Publication date Other: November 01 2018
                Publication date (Print): November 01 2018
                Publication date (Electronic): May 29 2018
                Volume: 34
                Issue: 21
                Pages: 3755-3758
                Affiliations
                [1 ]RCSB Protein Data Bank
                [2 ]San Diego Supercomputer Center, UC San Diego, CA, USA
                Article
                DOI: 10.1093/bioinformatics/bty419
                PMC ID: 6198858
                PubMed ID: 29850778
                SO-VID: bed5c345-8109-4ca2-94d1-eec6fada7b9d
                Copyright © © 2018
                License:

                https://academic.oup.com/journals/pages/open_access/funder_policies/chorus/standard_publication_model

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