Unified perspective on proteins: A physics approach

Abstract

We study a physical system which, while devoid of the complexity one usually associates with proteins, nevertheless displays a remarkable array of protein-like properties. The constructive hypothesis that this striking resemblance is not accidental leads not only to a unified framework for understanding protein folding, amyloid formation and protein interactions but also has implications for natural selection.

26 pages, 15 figures, to appear on Phys. Rev. E

References in corpus (9)

• Geometry and symmetry presculpt the free-energy landscape of proteins
• Reply to Comment on "Criterion that Determines the Foldability of Proteins"
• Universality classes in folding times of proteins
• Phase diagram of a semiflexible polymer chain in a $\theta$ solvent: application to protein folding
• From polymers to proteins -- novel phases of short compact tubes
• Monte Carlo Methods for the Self-Avoiding Walk
• Protein threading by learning
• Bethe Approximation for a Semi-flexible Polymer Chain
• Protein folding, anisotropic collapse and blue phases

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• A Condensation-Ordering Mechanism in Nanoparticle-Catalyzed Peptide Aggregation
• Self-Templated Nucleation in Peptide and Protein aggregation
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• Lattice tube model of proteins
• Molecular jamming - the cystine slipknot mechanical clamp in all-atom simulations
• Building blocks of protein structures -- Physics meets Biology
• Emergence of Secondary Motifs in Tube-Like Polymers in a Solvent
• Kinetically driven helix formation during the homopolymer collapse process
• Sequence dependent aggregation of peptides and fibril formation
• Geometry of proteins: hydrogen bonding, sterics and marginally compact tubes
• Thermodynamics of tubelike flexible polymers
• Geometric and physical considerations for realistic protein models
• Geometrical model for the native-state folds of proteins
• Arrested spinodal decomposition in polymer brush collapsing in poor solvent
• Protein sequence and structure: Is one more fundamental than the other?
• Thermodynamics and Kinetics of a Go Proteinlike Heteropolymer Model with Two-State Folding Characteristics
• Transient helix formation in semiflexible polymers without confinement effects
• Simulating Protein Conformations through Global Optimization
• Amino acid composition and thermal stability of protein structures: the free energy geography of the Protein Data Bank
• Three Bead Rotating Chain model shows universality in the stretching of proteins
• Hydrogen bond models for the simulation of protein folding and aggregation
• The immune system: look who's talking