def add(self, atom):
"""Add an Atom object.
Checks for adding duplicate atoms, and raises a
PDBConstructionException if so.
"""
atom_id = atom.get_id()
if self.has_id(atom_id):
raise PDBConstructionException(
"Atom %s defined twice in residue %s" % (atom_id, self))
Entity.add(self, atom)
def add(self, atom):
"""Add an Atom object.
Checks for adding duplicate atoms, and raises a
PDBConstructionException if so.
"""
atom_id=atom.get_id()
if self.has_id(atom_id):
raise PDBConstructionException(
"Atom %s defined twice in residue %s" % (atom_id, self))
Entity.add(self, atom)
def __init__(self, id, serial_num=None):
"""
Arguments:
o id - int
o serial_num - int
"""
self.level = "M"
if serial_num is None:
self.serial_num = id
else:
self.serial_num = serial_num
Entity.__init__(self, id)
def __init__(self, id, serial_num=None):
"""
Arguments:
o id - int
o serial_num - int
"""
self.level = "M"
if serial_num is None:
self.serial_num = id
else:
self.serial_num = serial_num
Entity.__init__(self, id)
def __delitem__(self, id):
"""
Arguments:
o id - (string, int, string) or int
"""
id = self._translate_id(id)
return Entity.__delitem__(self, id)
def __delitem__(self, id):
"""
Arguments:
o id - (string, int, string) or int
"""
id=self._translate_id(id)
return Entity.__delitem__(self, id)
def __contains__(self, id):
"""True if a residue with given id is present in this chain.
Arguments:
o id - (string, int, string) or int
"""
id = self._translate_id(id)
return Entity.__contains__(self, id)
def __contains__(self, id):
"""True if a residue with given id is present in this chain.
Arguments:
o id - (string, int, string) or int
"""
id=self._translate_id(id)
return Entity.__contains__(self, id)
def __getitem__(self, id):
"""Return the residue with given id.
The id of a residue is (hetero flag, sequence identifier, insertion code).
If id is an int, it is translated to (" ", id, " ") by the _translate_id
method.
Arguments:
o id - (string, int, string) or int
"""
id = self._translate_id(id)
return Entity.__getitem__(self, id)
def __getitem__(self, id):
"""Return the residue with given id.
The id of a residue is (hetero flag, sequence identifier, insertion code).
If id is an int, it is translated to (" ", id, " ") by the _translate_id
method.
Arguments:
o id - (string, int, string) or int
"""
id=self._translate_id(id)
return Entity.__getitem__(self, id)
def __init__(self, id):
self.level = "C"
Entity.__init__(self, id)
def __init__(self, id, resname, segid):
self.level = "R"
self.disordered = 0
self.resname = resname
self.segid = segid
Entity.__init__(self, id)
def __init__(self, id):
self.level="C"
Entity.__init__(self, id)
def __init__(self, id, resname, segid):
self.level="R"
self.disordered=0
self.resname=resname
self.segid=segid
Entity.__init__(self, id)