Package csb :: Package bio :: Package structure :: Class TorsionAnglesCollection

Class TorsionAnglesCollection

              object --+            
                       |            
    core.AbstractIndexer --+        
                           |        
core.BaseCollectionContainer --+    
                               |    
        core.CollectionContainer --+
                                   |
                                  TorsionAnglesCollection

Describes a collection of torsion angles. Provides 1-based list-like access.

Instance Methods

__init__(self, items=None, start=1)
x.__init__(...) initializes x; see help(type(x)) for signature

source code

__repr__(self)
repr(x)

source code

float

rmsd(self, other)
Calculate the Circular RSMD against another TorsionAnglesCollection.

source code

update(self, angles)

source code

Inherited from core.CollectionContainer: append

Inherited from core.BaseCollectionContainer: __bool__, __contains__, __getitem__, __iter__, __len__, __nonzero__

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

Properties
list	omega List of all omega angles
list	phi List of all phi angles
list	psi List of all psi angles
Inherited from `core.BaseCollectionContainer`: `last_index`, `length`, `start_index` Inherited from `object`: `__class__`

Method Details

init(self, items=None, start=1)
(Constructor)

source code

x.__init__(...) initializes x; see help(type(x)) for signature

Parameters:

items (list) - an initialization list of TorsionAngles

Overrides: object.__init__

(inherited documentation)

repr(self)
(Representation operator)

source code

repr(x)

Overrides: object.__repr__: (inherited documentation)

rmsd(self, other)

source code

Calculate the Circular RSMD against another TorsionAnglesCollection.

Parameters:

other (TorsionAnglesCollection) - subject (right-hand-term)

Returns: float

RMSD based on torsion angles

Raises:

Broken3DStructureError - on discontinuous torsion angle collections (phi and psi values are still allowed to be absent at the termini)
ValueError - on mismatching torsion angles collection lengths

Property Details

omega

List of all omega angles

Get Method:: unreachable.omega(self) - List of all omega angles
Type:: list

phi

List of all phi angles

Get Method:: unreachable.phi(self) - List of all phi angles
Type:: list

psi

List of all psi angles

Get Method:: unreachable.psi(self) - List of all psi angles
Type:: list

Class TorsionAnglesCollection

__init__(self, items=None, start=1) (Constructor)

__repr__(self) (Representation operator)

rmsd(self, other)

omega

phi

psi

init(self, items=None, start=1)
(Constructor)

repr(self)
(Representation operator)