Score_conservation
score_conservation
protein sequence conservation scoring tool
Install score_conservation
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Debian
apt-get install conservation-codeClick to copy -
Ubuntu
apt-get install conservation-codeClick to copy -
Kali Linux
apt-get install conservation-codeClick to copy -
Raspbian
apt-get install conservation-codeClick to copy
conservation-code
protein sequence conservation scoring toolThis package provides score_conservation(1), a tool to score protein sequence conservation. The following conservation scoring methods are implemented: * sum of pairs * weighted sum of pairs * Shannon entropy * Shannon entropy with property groupings (Mirny and Shakhnovich 1995, Valdar and Thornton 2001) * relative entropy with property groupings (Williamson 1995) * von Neumann entropy (Caffrey et al 2004) * relative entropy (Samudrala and Wang 2006) * Jensen-Shannon divergence (Capra and Singh 2007) A window-based extension that incorporates the estimated conservation of sequentially adjacent residues into the score for each column is also given. This window approach can be applied to any of the conservation scoring methods. The program accepts alignments in the CLUSTAL and FASTA formats. The sequence-specific output can be used as the conservation input for concavity. Conservation is highly predictive in identifying catalytic sites and residues near bound ligands.