Source code for mmtfPyspark.filters.containsLProteinChain

#!/user/bin/env python
'''containsLProteinChain.py

This filter returns entries that contain protein chain(s) made of L-amino acids.
The default constructor returns entries that contain at least one
polymer chain that is an L-protein. If the "exclusive" flag is set to true
in the constructor, all polymer chains must be L-proteins. For a multi-model structure,
this filter only checks the first model.

'''
__author__ = "Mars (Shih-Cheng) Huang"
__maintainer__ = "Mars (Shih-Cheng) Huang"
__email__ = "marshuang80@gmail.com"
__version__ = "0.2.0"
__status__ = "Done"

from mmtfPyspark.filters import ContainsPolymerChainType


[docs]class ContainsLProteinChain(object):
    '''Default constructor matches any entry that contains at least one
    L-protein chain. As an example a L-protein/DNA complex passes this filter

        Optional constructor that can be used to filter entries that exclusively
    contain L-protein chains. For example, with "exclusive" set to true, a
    L-protein/DNA complex does not pass this filter.

    Attributes
    ----------
    exclusive : bool
       if true, only return entries that are exclusively contain L-protein chains
    '''

    def __init__(self, exclusive=False):
        self.filter = ContainsPolymerChainType([
            ContainsPolymerChainType.L_PEPTIDE_LINKING,
            ContainsPolymerChainType.PEPTIDE_LINKING], exclusive=exclusive)

    def __call__(self, t):
        return self.filter(t)