Seeing the PDB

Ever since the first structures of proteins were determined in the 1960s, structural biologists have required methods to visualize biomolecular structures, both as an essential tool for their research and also to promote 3D comprehension of structural results by a wide audience of researchers, stude...

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Veröffentlicht in:	The Journal of biological chemistry Jg. 296; H. C; S. 100742
Hauptverfasser:	Richardson, Jane S., Richardson, David C., Goodsell, David S.
Format:	Journal Article
Sprache:	Englisch
Veröffentlicht:	United States Elsevier Inc 01.01.2021 Elsevier American Society for Biochemistry and Molecular Biology
Schlagworte:	all-atom contacts Databases, Protein - history History, 20th Century History, 21st Century Humans JBC Reviews Models, Molecular Molecular Biology - history molecular graphics protein folding protein structure ribbon drawings RNA structure science education and outreach structural biology visualization X-ray crystallography Frodo ribbon drawings visualization ORTEP GRIP-75 H Cα PDB protein structure X-ray crystallography RDC Suite all-atom contacts KiNG 1sns, 1LpL molecular graphics protein folding structural biology AED NOE RCSB science education and outreach vdW SOD wwPDB RNA structure 3D Mage PS300, or MPS TIM Kinemage SS bond CaBLAM
ISSN:	0021-9258, 1083-351X, 1083-351X
Online-Zugang:	Volltext
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Beschreibung
Zusammenfassung:	Ever since the first structures of proteins were determined in the 1960s, structural biologists have required methods to visualize biomolecular structures, both as an essential tool for their research and also to promote 3D comprehension of structural results by a wide audience of researchers, students, and the general public. In this review to celebrate the 50th anniversary of the Protein Data Bank, we present our own experiences in developing and applying methods of visualization and analysis to the ever-expanding archive of protein and nucleic acid structures in the worldwide Protein Data Bank. Across that timespan, Jane and David Richardson have concentrated on the organization inside and between the macromolecules, with ribbons to show the overall backbone “fold” and contact dots to show how the all-atom details fit together locally. David Goodsell has explored surface-based representations to present and explore biological subjects that range from molecules to cells. This review concludes with some ideas about the current challenges being addressed by the field of biomolecular visualization.
Bibliographie:	ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 ObjectType-Review-3 content type line 23 USDOE SC0019749
ISSN:	0021-9258 1083-351X 1083-351X
DOI:	10.1016/j.jbc.2021.100742