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BMCBI
2010
80views more  BMCBI 2010»
13 years 4 months ago
Sampling the conformation of protein surface residues for flexible protein docking
Background: The problem of determining the physical conformation of a protein dimer, given the structures of the two interacting proteins in their unbound state, is a difficult on...
Patricia Francis-Lyon, Shengyin Gu, Joel Hass, Nin...
BMCBI
2010
132views more  BMCBI 2010»
13 years 4 months ago
Protein docking by Rotation-Based Uniform Sampling (RotBUS) with fast computing of intermolecular contact distance and residue d
Background: Protein-protein interactions are fundamental for the majority of cellular processes and their study is of enormous biotechnological and therapeutic interest. In recent...
Albert Solernou, Juan Fernández-Recio
TCBB
2008
82views more  TCBB 2008»
13 years 4 months ago
Efficient Algorithms to Explore Conformation Spaces of Flexible Protein Loops
Two efficient and complementary sampling algorithms are presented to explore the space of closed clash-free conformations of a flexible protein loop. The "seed sampling" ...
Peggy Yao, Ankur Dhanik, Nathan Marz, Ryan Propper...
BIOINFORMATICS
2007
151views more  BIOINFORMATICS 2007»
13 years 4 months ago
A new protein-protein docking scoring function based on interface residue properties
Motivation: Protein–protein complexes are known to play key roles in many cellular processes. However, they are often not accessible to experimental study because of their low s...
Julie Bernauer, Jérôme Azé, Jo...
RECOMB
2006
Springer
14 years 4 months ago
Simulating Protein Motions with Rigidity Analysis
Abstract. Protein motions, ranging from molecular flexibility to largescale conformational change, play an essential role in many biochemical processes. Despite the explosion in ou...
Shawna L. Thomas, Xinyu Tang, Lydia Tapia, Nancy M...