Statistical distribution of hydrophobic residues along the length of protein chains. Implications for protein folding and evolution

Statistical analysis of the protein envi

Statistical analysis of the protein environment of N-glycosylation sites: implications for occupancy, structure, and folding

✍ Petrescu, A.-J. 📂 Article 📅 2003 🏛 Oxford University Press 🌐 English ⚖ 539 KB

Residue-Specific Contact Order and Conta

Residue-Specific Contact Order and Contact Breadth in Single-Domain Proteins: Implications for Folding as a Function of Chain Elongation

✍ Neşe Kurt; Bryan C. Mounce; Paul A. Ellison; Silvia Cavagnero 📂 Article 📅 2008 🏛 American Institute of Chemical Engineers 🌐 English ⚖ 271 KB

The structural code for proteins: Zonal

The structural code for proteins: Zonal distribution of amino acid residues and stabilization of helices by hydrophobic triplets

✍ J. Palau; P. Puigdoménech 📂 Article 📅 1974 🏛 Elsevier Science 🌐 English ⚖ 815 KB

Determination of side-chain-rotamer and

Determination of side-chain-rotamer and side-chain and backbone virtual-bond-stretching potentials of mean force from AM1 energy surfaces of terminally-blocked amino-acid residues, for coarse-grained simulations of protein structure and folding. I. The method

✍ Urszula Kozłowska; Adam Liwo; Harold A. Scheraga 📂 Article 📅 2010 🏛 John Wiley and Sons 🌐 English ⚖ 381 KB 👁 1 views

## Abstract In this and the accompanying article, we report the development of new physics‐based side‐chain‐rotamer and virtual‐bond‐deformation potentials which now replace the respective statistical potentials used so far in our physics‐based united‐reside UNRES force field for large‐scale simula

Determination of side-chain-rotamer and

Determination of side-chain-rotamer and side-chain and backbone virtual-bond-stretching potentials of mean force from AM1 energy surfaces of terminally-blocked amino-acid residues, for coarse-grained simulations of protein structure and folding. II. Results, comparison with statistical potentials, and implementation in the UNRES force field

✍ Urszula Kozłowska; Gia G. Maisuradze; Adam Liwo; Harold A. Scheraga 📂 Article 📅 2009 🏛 John Wiley and Sons 🌐 English ⚖ 674 KB

## Abstract Using the harmonic‐approximation approach of the accompanying article and AM1 energy surfaces of terminally blocked amino‐acid residues, we determined physics‐based side‐chain rotamer potentials and the side‐chain virtual‐bond‐deformation potentials of 19 natural amino‐acid residues wit