Amino acid characteristics in protein native state structures
T. Skrbic, A. Giacometti, T. X. Hoang…·J. R. Banavar
The paper analyzes side chain protrusion statistics in protein structures to understand amino acid behavior in native states.
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8 papers
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T. Skrbic, A. Giacometti, T. X. Hoang…·J. R. Banavar
The paper analyzes side chain protrusion statistics in protein structures to understand amino acid behavior in native states.
T. Skrbic, A. Giacometti, T. X. Hoang…·J. R. Banavar
The paper introduces a geometrical framework to understand protein turns by defining them as isolated local poking interactions, identifying their structural classes and amino acid preferences.
T. Skrbic, A. Giacometti, T. X. Hoang…·J. R. Banavar
The paper benchmarks a geometrical model of protein structure using structural data and simulations, showing that symmetry and geometry can explain protein complexity through poking interactions.
J. R. Banavar, A. Giacometti, T. X. Hoang…·T. Skrbic
The paper introduces a geometrical model of proteins based on symmetry and geometry, showing it aligns with experimental data and explains protein structure and function.
T. Skrbic, T. X. Hoang, A. Giacometti…·J. R. Banavar
This study investigates the phase behavior of a polymer model with side spheres, revealing a marginally compact phase with ordered structures and first-order transitions.
T. Skrbic, T. X. Hoang, A. Giacometti…·J. R. Banavar
The paper studies a homopolymer model of a linear chain molecule, finding a first-order phase transition, ground state degeneracy, spontaneous dimensional reduction, and a two-layer structure composed of helices and strands connected by loops.
T. Skrbic, A. Maritan, A. Giacometti…·J. R. Banavar
This paper derives the geometry of protein building blocks using physics and mathematics without sequence or chemistry, showing a perfect fit with quantum chemistry and implications for artificial life.
O. Simonetti, G. Lucarini, G. Morroni…·O. Cirioni
This study compares the effects of dalbavancin and vancomycin on wound healing in a mouse model of MRSA infection, finding faster healing with dalbavancin associated with higher EGFR and VEGF levels.