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Toolkit for concretely describing macromolecular complexes

Project description

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BcForms: toolkit for concretely describing macromolecular complexes

BcForms is a toolkit for concretely describing the molecular structure (atoms and bonds) of macromolecular complexes, including non-canonical monomeric forms, circular topologies, and crosslinks.

BcForms encompasses five tools: * A grammar for concretely describing subunit composition and interchain crosslinks of biocomplexes. See the documentation for more information. For example, the following text represents a homodimer complex with a disulfide bond between the first monomer in the first subunit and the first monomer in the second subunit. complex: 2 * sub_c | x-link: [         l-bond-atom: sub_c(1)-1S11 |         l-displaced-atom: sub_c(1)-1H11 |         r-bond-atom: sub_c(2)-1S11 |         r-displaced-atom: sub_c(2)-1H11       ]

This concrete representation enables the `BcForms` software tools to calculate properties of biocomplexes when the subunits are concretely defined.

Installation

  1. Install dependencies
  1. Install the latest release from PyPI pip install bcforms.git[all]
  2. Install the latest revision from GitHub pip install git+https://github.com/KarrLab/bcforms.git#egg=bcforms[all]

Documentation

Please see the API documentation.

License

The package is released under the MIT license.

Development team

This package was developed by the Karr Lab at the Icahn School of Medicine at Mount Sinai in New York, USA.

Questions and comments

Please contact the Karr Lab with any questions or comments.

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