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Geometry of proteins: hydrogen bonding, sterics and marginally compact tubes

Jayanth R. Banavar·Marek Cieplak·Alessandro Flammini·Trinh X. Hoang·Randall D. Kamien·Timothy Lezon·Davide Marenduzzo·Amos Maritan·Flavio Seno·Yehuda Snir·Antonio Trovato
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Abstract

The functionality of proteins is related to their structure in the native state. Protein structures are made up of emergent building blocks of helices and almost planar sheets. A simple coarse-grained geometrical model of a flexible tube barely subject to compaction provides a unified framework for understanding the common character of globular proteins.We argue that a recent critique of the tube idea is not well founded.

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Jayanth R. Banavar, Marek Cieplak, Alessandro Flammini, Trinh X. Hoang, Randall D. Kamien, Timothy Lezon, Davide Marenduzzo, Amos Maritan, Flavio Seno, Yehuda Snir, Antonio Trovato. 2006-03-20. Geometry of proteins: hydrogen bonding, sterics and marginally compact tubes. https://doi.org/10.1103/physreve.73.031921

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