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Man Pages


Manual Reference Pages  -  BIO::STRUCTURE::RESIDUE (3)

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NAME

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

CONTENTS

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.



  bioperl-l@bioperl.org                  - General discussion
  http://bioperl.org/wiki/Mailing_lists  - About the mailing lists



    Support

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

bioperl-l@bioperl.org

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 kris.boulez@algonomics.com

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 untill I get symbolic references to do what I want
 Returns :
 Args    :



add_atom()



 Title   : add_atom
 Usage   :
 Function:  nothing useful untill 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
        dont 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    :



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