1 citations · 1 across the 3 of their papers we have counts for
7 papers
The architecture of the protein domain universe
Nikolay V. Dokholyan
Understanding the design of the universe of protein structures may provide insights into protein evolution. We study the architecture of the protein domain universe, which has been…
Can contact potentials reliably predict stability of proteins?
Jainab Kahtun, Sagar D. Khare, Nikolay V. Dokholyan
The simplest approximation of interaction potential between amino-acids in proteins is the contact potential, which defines the effective free energy of a protein conformation by a…
Folding of Cu, Zn superoxide dismutase and Familial Amyotrophic Lateral Sclerosis
Sagar D. Khare, Feng Ding, Nikolay V. Dokholyan
Cu,Zn superoxide dismutase (SOD1) has been implicated in the familial form of the neurodegenerative disease Amyotrophic Lateral Sclerosis (ALS). It has been suggested that mutant m…
Understanding hierarchical protein evolution from first principles
Nikolay V. Dokholyan, Eugene I. Shakhnovich
We propose a model that explains the hierarchical organization of proteins in fold families. The model, which is based on the evolutionary selection of proteins by their native sta…
Understanding conserved amino acids in proteins
Nikolay V. Dokholyan, Leonid A. Mirny, Eugene I. Shakhnovich
It has been conjectured that evolution exerted pressure to preserve amino acids bearing thermodynamic, kinetic, and functional roles. In this letter we show that the physical requi…
Traveling time and traveling length for flow in porous media
Youngki Lee, Jose S. Andrade, Sergey V. Buldyrev +5
We study traveling time and traveling length for tracer dispersion in porous media. We model porous media by two-dimensional bond percolation, and we model flow by tracer particles…