A fresh look at the Ramachandran plot and the occurrence of standard structures in proteins
By Scott A. Hollingsworth, Paul Karplus. 2010
375 citations recorded by the source corpus.
Abstract The Ramachandran plot is among the most central concepts in structural biology, seen in publications and textbooks alike. However, with the increasing numbers of known protein structures and greater accuracy of ultra-high resolution protein structures, we are still learning more about the basic principles of protein structure. Here, we use high-fidelity conformational information to explore novel ways, such as geo-style and wrapped Ramachandran plots, to convey some of the basic aspects of the Ramachandran plot and of protein conformation. We point out the pressing need for a standard nomenclature for peptide conformation and propose such a nomenclature. Finally, we summarize some recent conceptual advances related to the building blocks of protein structure. The results for linear groups imply the need for substantive revisions in how the basics of protein structure are handled.
Subfields: Materials Chemistry, Molecular Biology
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In Materials Chemistry
In Molecular Biology
Citations in the corpus
- RUPEE: A fast and accurate purely geometric protein structure search (2018, methodology): “This continuity problem was partially addressed in [18] using wrapped and mirrored 100 plots.”