mmLib.Structure.Strand

Package mmLib :: Module Structure :: Class Strand

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Type Strand

object --+
         |
        Strand

One strand of a BetaSheet.

Method Summary
	`__init__(self, chain_id1, frag_id1, res_name1, chain_id2, frag_id2, res_name2, reg_chain_id, reg_frag_id, reg_res_name, reg_atom, reg_prev_chain_id, reg_prev_frag_id, reg_prev_res_name, reg_prev_atom, **args)`
	`__str__(self)`
	`add_segment(self, segment)` Adds the Segment object this Strand spans.
	`construct_segment(self)` Constructs the child Segment object from the Chain object found in the parent Structure object by the BetaSheet chain_id/fragment_id information.
	`get_beta_sheet(self)` Returns the parent BetaSheet object.
	`get_chain(self)` Returns the parent Chain object.
	`get_model(self)` Returns the parent Model object.
	`get_segment(self)` Return the child Segment object this AlphaHelix spans in the parent Model.
	`get_structure(self)` Returns the parent Structure object.
	`iter_all_atoms(self)` Iterates all Atom objects plus any in non-default alt_loc conformations.
	`iter_atoms(self)` Iterates all Atom objects.
	`iter_fragments(self)` Iterates all Fragment objects.
Inherited from object
	`__delattr__(...)` x.__delattr__('name') <==> del x.name
	`__getattribute__(...)` x.__getattribute__('name') <==> x.name
	`__hash__(x)` x.__hash__() <==> hash(x)
	`__new__(T, S, ...)` T.__new__(S, ...) -> a new object with type S, a subtype of T
	`__reduce__(...)` helper for pickle
	`__reduce_ex__(...)` helper for pickle
	`__repr__(x)` x.__repr__() <==> repr(x)
	`__setattr__(...)` x.__setattr__('name', value) <==> x.name = value

Method Details

add_segment(self, segment)

Adds the Segment object this Strand spans. If the Strand already has a Segment, then it is replaced. The Segment objects added to Strand objects must have the attribute segment.chain referencing the source Chain object the Segment was sliced from.

construct_segment(self)

Constructs the child Segment object from the Chain object found in the parent Structure object by the BetaSheet chain_id/fragment_id information. Returns True if the Segment was created, or False if it was not. The Segment is not created when the fragment range fragment_id1:fragment_id2 cannot be found in the parent Chain object.

get_beta_sheet(self)

Returns the parent BetaSheet object.

get_chain(self)

Returns the parent Chain object. If the Strand does not have a Segment child the raised AttributeError.

get_model(self)

Returns the parent Model object.

get_segment(self)

Return the child Segment object this AlphaHelix spans in the parent Model.

get_structure(self)

Returns the parent Structure object.

iter_all_atoms(self)

Iterates all Atom objects plus any in non-default alt_loc conformations.

iter_atoms(self)

Iterates all Atom objects.

iter_fragments(self)

Iterates all Fragment objects.

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