Package schrodinger :: Package application :: Package desmond :: Package packages :: Package msys :: Class Atom

Class Atom

object --+    
         |    
    Handle --+
             |
            Atom

Instance Methods

[hide private]

__repr__(self)
repr(x)

fullname(self)

data(self)

remove(self)
remove this Atom from the System

__setitem__(self, key, val)
set atom property key to val

__getitem__(self, key)
get atom property key

__contains__(self, key)
does atom property key exist?

addBond(self, other)
create and return a Bond from self to other

findBond(self, other)
Find the bond between self and Atom other; None if not found

pos(self, xyz)

vel(self, xyz)

residue(self, res)

bonds(self)
Bonds connected to this atom

bonded_atoms(self)
Atoms bonded to this atom

nbonds(self)
number of bonds to this atom

Inherited from Handle: __eq__, __hash__, __init__, __ne__, id, system

Inherited from object: __delattr__, __format__, __getattribute__, __new__, __reduce__, __reduce_ex__, __setattr__, __sizeof__, __str__, __subclasshook__

Properties

[hide private]

Inherited from object: __class__

Method Details

[hide private]

repr(self)
(Representation operator)

repr(x)

Overrides: object.__repr__: (inherited documentation)

fullname(self)

Decorators:

@property

pos(self, xyz)

Decorators:

@pos.setter

vel(self, xyz)

Decorators:

@vel.setter

residue(self, res)

Decorators:

@residue.setter

bonds(self)

Bonds connected to this atom

Decorators:

@property

bonded_atoms(self)

Atoms bonded to this atom

Decorators:

@property

nbonds(self)

number of bonds to this atom

Decorators:

@property

Class Atom

__repr__(self) (Representation operator)

fullname(self)

pos(self, xyz)

vel(self, xyz)

residue(self, res)

bonds(self)

bonded_atoms(self)

nbonds(self)

repr(self)
(Representation operator)