67 citations · 156 across the 5 of their papers we have counts for
5 papers
Empirical Potential Function for Simplified Protein Models: Combining Contact and Local Sequence-Structure Descriptors
Jinfeng Zhang, Rong Chen, Jie Liang
An effective potential function is critical for protein structure prediction and folding simulation. Simplified protein models such as those requiring only or backbone atoms…
Potential function of simplified protein models for discriminating native proteins from decoys: Combining contact interaction and local sequence-dependent geometry
Jinfeng Zhang, Rong Chen, Jie Liang
An effective potential function is critical for protein structure prediction and folding simulation. For simplified models of proteins where coordinates of only atoms need to…
Importance of chirality and reduced flexibility of protein side chains: A study with square and tetrahedral lattice models
Jinfeng Zhang, Yu Chen, Rong Chen +1
In simple models side chains are often represented implicitly (e.g., by spin-states) or simplified as one atom. We study side chain effects using square lattice and tetrahedral lat…
Origin of Scaling Behavior of Protein Packing Density: A Sequential Monte Carlo Study of Compact Long Chain Polymers
Jinfeng Zhang, Rong Chen, Chao Tang +1
Single domain proteins are thought to be tightly packed. The introduction of voids by mutations is often regarded as destabilizing. In this study we show that packing density for s…
Statistical Geometry of Packing Defects of Lattice Chain Polymer from Enumeration and Sequential Monte Carlo Method
Jie Liang, Jinfeng Zhang, Rong Chen
Voids exist in proteins as packing defects and are often associated with protein functions. We study the statistical geometry of voids in two-dimensional lattice chain polymers. We…