[ 源代码: conservation-code ]
软件包: conservation-code (20110309.0-6)
conservation-code 的相关链接
Trisquel 的资源:
下载源码包 conservation-code:
- [conservation-code_20110309.0-6.dsc]
- [conservation-code_20110309.0.orig.tar.xz]
- [conservation-code_20110309.0-6.debian.tar.xz]
维护者:
Original Maintainers:
- Debian Med Packaging Team (Mail Archive)
- Laszlo Kajan
- Andreas Tille
外部的资源:
- 主页 [compbio.cs.princeton.edu]
相似软件包:
protein sequence conservation scoring tool
This 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.
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- dep: python
- interactive high-level object-oriented language (default version)
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- dep: python-numpy
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- enh: concavity
- predictor of protein ligand binding sites from structure and conservation