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» Protein structural similarity search by Ramachandran codes
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BMCBI
2005
198views more  BMCBI 2005»
13 years 7 months ago
Clustering protein sequences with a novel metric transformed from sequence similarity scores and sequence alignments with neural
Background: The sequencing of the human genome has enabled us to access a comprehensive list of genes (both experimental and predicted) for further analysis. While a majority of t...
Qicheng Ma, Gung-Wei Chirn, Richard Cai, Joseph D....
BMCBI
2006
96views more  BMCBI 2006»
13 years 7 months ago
Structure alignment based on coding of local geometric measures
Background: A structure alignment method based on a local geometric property is presented and its performance is tested in pairwise and multiple structure alignments. In this appr...
Peter L. Chang, Andrew W. Rinne, T. Gregory Dewey
ISDA
2009
IEEE
14 years 2 months ago
Similarity Analysis of Protein Binding Sites: A Generalization of the Maximum Common Subgraph Measure Based on Quasi-Clique Dete
—Protein binding sites are often represented by means of graphs capturing their most important geometrical and physicochemical properties. Searching for structural similarities a...
Imen Boukhris, Zied Elouedi, Thomas Fober, Marco M...
BMCBI
2005
101views more  BMCBI 2005»
13 years 7 months ago
PALSSE: A program to delineate linear secondary structural elements from protein structures
Background: The majority of residues in protein structures are involved in the formation of helices and -strands. These distinctive secondary structure patterns can be used to rep...
Indraneel Majumdar, S. Sri Krishna, Nick V. Grishi...
BMCBI
2007
115views more  BMCBI 2007»
13 years 7 months ago
Local comparison of protein structures highlights cases of convergent evolution in analogous functional sites
Background: We performed an exhaustive search for local structural similarities in an ensemble of non-redundant protein functional sites. With the purpose of finding new examples ...
Gabriele Ausiello, Daniele Peluso, Allegra Via, Ma...