Ubuntu
concavity package

concavity 0.1-2 source package in Ubuntu

Changelog

concavity (0.1-2) unstable; urgency=low


  * Added cmd line argument for limiting cavity threshold search steps.
  * Use a wildcard to account for all architectures (Closes: #693017).

 -- Laszlo Kajan <email address hidden>  Wed, 10 Oct 2012 18:05:08 +0200

Upload details

Uploaded by:
Debian Med
Uploaded to:
Sid
Original maintainer:
Debian Med
Architectures:
any
Section:
misc
Urgency:
Low Urgency

See full publishing history Publishing

Series Pocket Published Component Section
Trusty release universe misc

Downloads

File Size SHA-256 Checksum
concavity_0.1-2.dsc 2.0 KiB 3ba0cd089d337b08d300651e8edd1097607b9c771675b789bc85d6a7243fd344
concavity_0.1.orig.tar.xz 314.6 KiB d139ad02edfedf5199432e34da1dc2be91004bcad650f30c03a69d21c9ab9f79
concavity_0.1-2.debian.tar.gz 10.7 KiB 91788777e598f8c93fb57f8fed5fefeee717f6fbe2335208d934cc07b9050235

Available diffs

No changes file available.

Binary packages built by this source

concavity: predictor of protein ligand binding sites from structure and conservation

 ConCavity predicts protein ligand binding sites by combining evolutionary
 sequence conservation and 3D structure.
 .
 ConCavity takes as input a PDB format protein structure and optionally
 files that characterize the evolutionary sequence conservation of the chains
 in the structure file.
 .
 The following result files are produced by default:
  * Residue ligand binding predictions for each chain (*.scores).
  * Residue ligand binding predictions in a PDB format file (residue
    scores placed in the temp. factor field, *_residue.pdb).
  * Pocket prediction locations in a DX format file (*.dx).
  * PyMOL script to visualize the predictions (*.pml).
 .
 ConCavity has many features. The default run of concavity is equivalent to
 ConCavity in the paper:
 'Capra JA, Laskowski RA, Thornton JM, Singh M, and Funkhouser TA(2009)
 Predicting Protein Ligand Binding Sites by Combining Evolutionary Sequence
 Conservation and 3D Structure. PLoS Comput Biol, 5(12).'.
 .
 score_conservation(1) from the conservation-code package can be used to
 calculate evolutionary sequence conservation for concavity.

concavity-dbg: No summary available for concavity-dbg in ubuntu raring.

No description available for concavity-dbg in ubuntu raring.

concavity-dbgsym: debug symbols for package concavity

 ConCavity predicts protein ligand binding sites by combining evolutionary
 sequence conservation and 3D structure.
 .
 ConCavity takes as input a PDB format protein structure and optionally
 files that characterize the evolutionary sequence conservation of the chains
 in the structure file.
 .
 The following result files are produced by default:
  * Residue ligand binding predictions for each chain (*.scores).
  * Residue ligand binding predictions in a PDB format file (residue
    scores placed in the temp. factor field, *_residue.pdb).
  * Pocket prediction locations in a DX format file (*.dx).
  * PyMOL script to visualize the predictions (*.pml).
 .
 ConCavity has many features. The default run of concavity is equivalent to
 ConCavity in the paper:
 'Capra JA, Laskowski RA, Thornton JM, Singh M, and Funkhouser TA(2009)
 Predicting Protein Ligand Binding Sites by Combining Evolutionary Sequence
 Conservation and 3D Structure. PLoS Comput Biol, 5(12).'.
 .
 score_conservation(1) from the conservation-code package can be used to
 calculate evolutionary sequence conservation for concavity.