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__init__(self,
name,
resolution=None)
x.__init__(...) initializes x; see x.__class__.__doc__ for signature |
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_get_dssp_results(self)
Executes the program dssp to get the accessibility |
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_get_sorted_chains(self)
Returns a list with the chain names sorted |
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add_atom(self,
chain_name,
residue_num,
residue_type=None,
atomObject=None)
Atom object can be None in order to indicate that it must be added a
residue but no atoms information |
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add_residue(self,
chain_name,
residue_num=0,
atoms_initial_list=[ ] ,
residue_type=None,
hssp_conservation=None,
hssp_entropy=None,
hssp_exposure=None,
hssp_norm_entropy=None,
hssp_variability=None,
dssp=None,
residue_object=None)
To add residue. |
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get_contacting_pairs_indices(self,
pdb2,
chains1,
chains2,
type=' min ' ,
cutoff=5.0)
Returns the indices!!! Not the residue nums!!!! |
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get_distances(self,
pdb2,
chains1,
chains2,
type=' min ' ,
fragments1=None,
fragments2=None)
"type" can be "min", "mean", "ca" or "cb" |
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get_dssp_as_horiz(self,
chain_name)
Returns the dssp result in psi-pred nomenclature |
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get_in_pdb_format(self)
Gets a string with the pdb atoms in PDB format |
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get_rel_dssp_accessibility(self,
chain_name) |
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get_sequence(self,
chain_name=None)
Returns a dictionary with chains as keys and sequence string as
values |
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Inherited from object :
__delattr__ ,
__getattribute__ ,
__hash__ ,
__new__ ,
__reduce__ ,
__reduce_ex__ ,
__repr__ ,
__setattr__ ,
__str__
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