concavity
predictor of protein ligand binding sites from structure and conservation
Command lineScience
Not tested on a device yet. What that means
Commands in the package
concavity
About concavity
From Debian's package description
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).
From Debian's description of the concavity package, under that package's license.
Dependencies
Depends on
libc6libgcc-s1libstdc++6
Related apps
- pscan-tfbssearch for transcription factor binding sitesCommand line
- autodockanalysis of ligand binding to protein structureCommand line
- metastudentpredictor of Gene Ontology terms from protein sequenceCommand line
- dsspprotein secondary structure assignment based on 3D structureCommand line
- autogridpre-calculate binding of ligands to their receptorCommand line
- conservation-codeprotein sequence conservation scoring toolCommand line
Sources and licenses
- Name: the Debian package name.
- Summary: Debian's short description of the concavity package, under that package's license.
- Description: Debian's description of the concavity package, under that package's license.
- Versions and sizes: Debian's archive for ARM64, as on packages.debian.org.
- Popularity: Debian Popularity Contest counts.
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