Reference

Bio::Structure::Residue(3pm)

Bioperl structure Object, describes a Residue

NAME

Bio::Structure::Residue - Bioperl structure Object, describes a Residue

SYNOPSIS

  #add synopsis here

DESCRIPTION

This object stores a Bio::Structure::Residue

FEEDBACK

Mailing Lists

User feedback is an integral part of the evolution of this and other Bioperl modules. Send your comments and suggestions preferably to one of the Bioperl mailing lists. Your participation is much appreciated.

  [email protected]                  - General discussion
  http://bioperl.org/wiki/Mailing_lists  - About the mailing lists

Support

Please direct usage questions or support issues to the mailing list:

[email protected]

rather than to the module maintainer directly. Many experienced and reponsive experts will be able look at the problem and quickly address it. Please include a thorough description of the problem with code and data examples if at all possible.

Reporting Bugs

Report bugs to the Bioperl bug tracking system to help us keep track the bugs and their resolution. Bug reports can be submitted via the web:

  https://github.com/bioperl/bioperl-live/issues

AUTHOR - Kris Boulez

Email [email protected]

APPENDIX

The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _

new()

 Title   : new()
 Usage   : $residue = Bio::Structure::Residue->new( 
                                           -id  => 'human_id',
                                           );
 Function: Returns a new Bio::Structure::Residue object from basic 
        constructors. Probably most called from Bio::Structure::IO.
 Returns : a new Bio::Structure::Residue object

atom()

 Title   : atom 
 Usage   : 
 Function:  nothing useful until I get symbolic references to do what I want
 Returns : 
 Args    :

add_atom()

 Title   : add_atom
 Usage   : 
 Function:  nothing useful until I get symbolic references to do what I want
 Returns : 
 Args    :

chain()

 Title   : chain
 Usage   : $chain = $residue->chain($chain)
 Function: Sets the Chain this Residue belongs to
 Returns : Returns the Chain this Residue belongs to
 Args    : reference to a Chain

id()

 Title   : id
 Usage   : $residue->id("TRP-35")
 Function: Gets/sets the ID for this residue
 Returns : the ID
 Args    : the ID

DESTROY()

 Title   : DESTROY
 Usage   : 
 Function: destructor ( get rid of circular references )
 Returns : 
 Args    :

_remove_atoms()

 Title   : _remove_atoms
 Usage   : 
 Function: Removes the atoms attached to a Residue. Tells the atoms they
        don't belong to this Residue any more
 Returns : 
 Args    :

_remove_chain()

 Title   : _remove_chain
 Usage   : 
 Function: Removes the Chain this Residue is atttached to.
 Returns : 
 Args    :

_grandparent()

 Title   : _grandparent
 Usage   : 
 Function: get/set a symbolic reference to our grandparent
 Returns : 
 Args    :

History