Bond

This module defines Bond for dealing with bond information provided by using the AtomGroup.setBonds() or AtomGroup.inferBonds() method.

class prody.atomic.bond.Bond(ag, indices, acsi=None)[source]

A pointer class for bonded atoms. Following built-in functions are customized for this class:

len() returns bond length, i.e. getLength()
iter() yields Atom instances

getACSIndex()[source]: Returns index of the coordinate set.

getAtomGroup()[source]: Returns atom group.

getAtoms()[source]: Returns bonded atoms.

getIndices()[source]: Returns indices of bonded atoms.

getLength()[source]: Returns bond length.

getVector()[source]: Returns bond vector that originates from the first atom.

setACSIndex(index)[source]: Set the coordinate set at index active.