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» Hidden conformations in protein structures
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COMPSAC
2004
IEEE
13 years 11 months ago
Protein Functional Motion Query and Visualization
Function is a dynamic property closely related to the conformational mechanisms of the protein structure in its physiological environment. Efficient methods and tools for predicti...
Xiong Liu, Hassan A. Karimi, Lee-Wei Yang, Ivet Ba...
BIBE
2005
IEEE
116views Bioinformatics» more  BIBE 2005»
14 years 1 months ago
Stochastic Model of Protease-Ligand Reactions
Prediction of protein tertiary structure based on amino acid sequence is one of the most challenging open questions in computational molecular biology. The two most common experim...
Paul E. Anderson, Douglas W. Raiford, Deacon J. Sw...
BMCBI
2004
177views more  BMCBI 2004»
13 years 7 months ago
Gapped alignment of protein sequence motifs through Monte Carlo optimization of a hidden Markov model
Background: Certain protein families are highly conserved across distantly related organisms and belong to large and functionally diverse superfamilies. The patterns of conservati...
Andrew F. Neuwald, Jun S. Liu
KDD
2002
ACM
154views Data Mining» more  KDD 2002»
14 years 8 months ago
Mining Protein Contact Maps
The 3D conformation of a protein may be compactly represented in a symmetrical, square, boolean matrix of pairwise, inter-residue contacts, or "contact map". The contact...
Jingjing Hu, Xiaolan Shen, Yu Shao, Chris Bystroff...
BMCBI
2010
131views more  BMCBI 2010»
13 years 2 months ago
Dynamics based alignment of proteins: an alternative approach to quantify dynamic similarity
Background: The dynamic motions of many proteins are central to their function. It therefore follows that the dynamic requirements of a protein are evolutionary constrained. In or...
Márton Münz, Rune B. Lyngsø, Jo...