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BIOCOMP
2006
13 years 6 months ago
TALI: Protein Structure Alignment Using Backbone Torsion Angles
- This article introduces a novel protein structure alignment method (named TALI) based on protein backbone torsion angle instead of the more traditional distance matrix. Represent...
Xijiang Miao, Michael Bryson, Homayoun Valafar
BMCBI
2005
92views more  BMCBI 2005»
13 years 4 months ago
A restraint molecular dynamics and simulated annealing approach for protein homology modeling utilizing mean angles
Background: We have developed the program PERMOL for semi-automated homology modeling of proteins. It is based on restrained molecular dynamics using a simulated annealing protoco...
Andreas Möglich, Daniel Weinfurtner, Till Mau...
CSB
2005
IEEE
115views Bioinformatics» more  CSB 2005»
13 years 10 months ago
Mining Protein Sequence Motifs Representing Common 3D Structures
Understanding the relationship between protein structure and its sequence is one of the most important tasks of current bioinformatics research. In this work, recurring protein se...
Wei Zhong, Gulsah Altun, Robert W. Harrison, Phang...
JCC
2006
110views more  JCC 2006»
13 years 4 months ago
Using internal and collective variables in Monte Carlo simulations of nucleic acid structures: Chain breakage/closure algorithm
: This article describes a method for solving the geometric closure problem for simplified models of nucleic acid structures by using the constant bond lengths approximation. The r...
Heinz Sklenar, Daniel Wüstner, Remo Rohs
BMCBI
2010
161views more  BMCBI 2010»
13 years 5 months ago
FRASS: the web-server for RNA structural comparison
Background: The impressive increase of novel RNA structures, during the past few years, demands automated methods for structure comparison. While many algorithms handle only small...
Svetlana Kirillova, Silvio C. E. Tosatto, Oliviero...