<?xml version="1.0" encoding="ascii"?> <!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" "DTD/xhtml1-transitional.dtd"> <html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en"> <head> <title>Bio.PDB.Residue.DisorderedResidue</title> <link rel="stylesheet" href="epydoc.css" type="text/css" /> <script type="text/javascript" src="epydoc.js"></script> </head> <body bgcolor="white" text="black" link="blue" vlink="#204080" alink="#204080"> <!-- ==================== NAVIGATION BAR ==================== --> <table class="navbar" border="0" width="100%" cellpadding="0" bgcolor="#a0c0ff" cellspacing="0"> <tr valign="middle"> <!-- Tree link --> <th> <a href="module-tree.html">Trees</a> </th> <!-- Index link --> <th> <a href="identifier-index.html">Indices</a> </th> <!-- Help link --> <th> <a href="help.html">Help</a> </th> <th class="navbar" width="100%"></th> </tr> </table> <table width="100%" cellpadding="0" cellspacing="0"> <tr valign="top"> <td width="100%"> <span class="breadcrumbs"> <a href="Bio-module.html">Package Bio</a> :: <a href="Bio.PDB-module.html">Package PDB</a> :: <a href="Bio.PDB.Residue-module.html">Module Residue</a> :: Class DisorderedResidue </span> </td> <td> <table cellpadding="0" cellspacing="0"> <!-- hide/show private --> <tr><td align="right"><span class="options">[<a href="javascript:void(0);" class="privatelink" onclick="toggle_private();">hide private</a>]</span></td></tr> <tr><td align="right"><span class="options" >[<a href="frames.html" target="_top">frames</a >] | <a href="Bio.PDB.Residue.DisorderedResidue-class.html" target="_top">no frames</a>]</span></td></tr> </table> </td> </tr> </table> <!-- ==================== CLASS DESCRIPTION ==================== --> <h1 class="epydoc">Class DisorderedResidue</h1><p class="nomargin-top"><span class="codelink"><a href="Bio.PDB.Residue-pysrc.html#DisorderedResidue">source code</a></span></p> <pre class="base-tree"> <a href="Bio.PDB.Entity.DisorderedEntityWrapper-class.html">Entity.DisorderedEntityWrapper</a> --+ | <strong class="uidshort">DisorderedResidue</strong> </pre> <hr /> <p>DisorderedResidue is a wrapper around two or more Residue objects. It is used to represent point mutations (e.g. there is a Ser 60 and a Cys 60 residue, each with 50 % occupancy).</p> <!-- ==================== INSTANCE METHODS ==================== --> <a name="section-InstanceMethods"></a> <table class="summary" border="1" cellpadding="3" cellspacing="0" width="100%" bgcolor="white"> <tr bgcolor="#70b0f0" class="table-header"> <td colspan="2" class="table-header"> <table border="0" cellpadding="0" cellspacing="0" width="100%"> <tr valign="top"> <td align="left"><span class="table-header">Instance Methods</span></td> <td align="right" valign="top" ><span class="options">[<a href="#section-InstanceMethods" class="privatelink" onclick="toggle_private();" >hide private</a>]</span></td> </tr> </table> </td> </tr> <tr> <td width="15%" align="right" valign="top" class="summary"> <span class="summary-type"> </span> </td><td class="summary"> <table width="100%" cellpadding="0" cellspacing="0" border="0"> <tr> <td><span class="summary-sig"><a href="Bio.PDB.Residue.DisorderedResidue-class.html#__init__" class="summary-sig-name">__init__</a>(<span class="summary-sig-arg">self</span>, <span class="summary-sig-arg">id</span>)</span></td> <td align="right" valign="top"> <span class="codelink"><a href="Bio.PDB.Residue-pysrc.html#DisorderedResidue.__init__">source code</a></span> </td> </tr> </table> </td> </tr> <tr> <td width="15%" align="right" valign="top" class="summary"> <span class="summary-type"> </span> </td><td class="summary"> <table width="100%" cellpadding="0" cellspacing="0" border="0"> <tr> <td><span class="summary-sig"><a name="__repr__"></a><span class="summary-sig-name">__repr__</span>(<span class="summary-sig-arg">self</span>)</span></td> <td align="right" valign="top"> <span class="codelink"><a href="Bio.PDB.Residue-pysrc.html#DisorderedResidue.__repr__">source code</a></span> </td> </tr> </table> </td> </tr> <tr> <td width="15%" align="right" valign="top" class="summary"> <span class="summary-type"> </span> </td><td class="summary"> <table width="100%" cellpadding="0" cellspacing="0" border="0"> <tr> <td><span class="summary-sig"><a name="add"></a><span class="summary-sig-name">add</span>(<span class="summary-sig-arg">self</span>, <span class="summary-sig-arg">atom</span>)</span></td> <td align="right" valign="top"> <span class="codelink"><a href="Bio.PDB.Residue-pysrc.html#DisorderedResidue.add">source code</a></span> </td> </tr> </table> </td> </tr> <tr> <td width="15%" align="right" valign="top" class="summary"> <span class="summary-type"> </span> </td><td class="summary"> <table width="100%" cellpadding="0" cellspacing="0" border="0"> <tr> <td><span class="summary-sig"><a name="sort"></a><span class="summary-sig-name">sort</span>(<span class="summary-sig-arg">self</span>)</span><br /> Sort the atoms in the child Residue objects.</td> <td align="right" valign="top"> <span class="codelink"><a href="Bio.PDB.Residue-pysrc.html#DisorderedResidue.sort">source code</a></span> </td> </tr> </table> </td> </tr> <tr> <td width="15%" align="right" valign="top" class="summary"> <span class="summary-type"> </span> </td><td class="summary"> <table width="100%" cellpadding="0" cellspacing="0" border="0"> <tr> <td><span class="summary-sig"><a href="Bio.PDB.Residue.DisorderedResidue-class.html#disordered_add" class="summary-sig-name">disordered_add</a>(<span class="summary-sig-arg">self</span>, <span class="summary-sig-arg">residue</span>)</span><br /> Add a residue object and use its resname as key.</td> <td align="right" valign="top"> <span class="codelink"><a href="Bio.PDB.Residue-pysrc.html#DisorderedResidue.disordered_add">source code</a></span> </td> </tr> </table> </td> </tr> <tr> <td colspan="2" class="summary"> <p class="indent-wrapped-lines"><b>Inherited from <code><a href="Bio.PDB.Entity.DisorderedEntityWrapper-class.html">Entity.DisorderedEntityWrapper</a></code></b>: <code><a href="Bio.PDB.Entity.DisorderedEntityWrapper-class.html#__getattr__">__getattr__</a></code>, <code><a href="Bio.PDB.Entity.DisorderedEntityWrapper-class.html#__setitem__">__setitem__</a></code>, <code><a href="Bio.PDB.Entity.DisorderedEntityWrapper-class.html#detach_parent">detach_parent</a></code>, <code><a href="Bio.PDB.Entity.DisorderedEntityWrapper-class.html#disordered_get">disordered_get</a></code>, <code><a href="Bio.PDB.Entity.DisorderedEntityWrapper-class.html#disordered_get_id_list">disordered_get_id_list</a></code>, <code><a href="Bio.PDB.Entity.DisorderedEntityWrapper-class.html#disordered_get_list">disordered_get_list</a></code>, <code><a href="Bio.PDB.Entity.DisorderedEntityWrapper-class.html#disordered_has_id">disordered_has_id</a></code>, <code><a href="Bio.PDB.Entity.DisorderedEntityWrapper-class.html#disordered_select">disordered_select</a></code>, <code><a href="Bio.PDB.Entity.DisorderedEntityWrapper-class.html#get_id">get_id</a></code>, <code><a href="Bio.PDB.Entity.DisorderedEntityWrapper-class.html#get_parent">get_parent</a></code>, <code><a href="Bio.PDB.Entity.DisorderedEntityWrapper-class.html#is_disordered">is_disordered</a></code>, <code><a href="Bio.PDB.Entity.DisorderedEntityWrapper-class.html#set_parent">set_parent</a></code> </p> </td> </tr> </table> <!-- ==================== METHOD DETAILS ==================== --> <a name="section-MethodDetails"></a> <table class="details" border="1" cellpadding="3" cellspacing="0" width="100%" bgcolor="white"> <tr bgcolor="#70b0f0" class="table-header"> <td colspan="2" class="table-header"> <table border="0" cellpadding="0" cellspacing="0" width="100%"> <tr valign="top"> <td align="left"><span class="table-header">Method Details</span></td> <td align="right" valign="top" ><span class="options">[<a href="#section-MethodDetails" class="privatelink" onclick="toggle_private();" >hide private</a>]</span></td> </tr> </table> </td> </tr> </table> <a name="__init__"></a> <div> <table class="details" border="1" cellpadding="3" cellspacing="0" width="100%" bgcolor="white"> <tr><td> <table width="100%" cellpadding="0" cellspacing="0" border="0"> <tr valign="top"><td> <h3 class="epydoc"><span class="sig"><span class="sig-name">__init__</span>(<span class="sig-arg">self</span>, <span class="sig-arg">id</span>)</span> <br /><em class="fname">(Constructor)</em> </h3> </td><td align="right" valign="top" ><span class="codelink"><a href="Bio.PDB.Residue-pysrc.html#DisorderedResidue.__init__">source code</a></span> </td> </tr></table> <dl class="fields"> <dt>Overrides: <a href="Bio.PDB.Entity.DisorderedEntityWrapper-class.html#__init__">Entity.DisorderedEntityWrapper.__init__</a> </dt> </dl> </td></tr></table> </div> <a name="disordered_add"></a> <div> <table class="details" border="1" cellpadding="3" cellspacing="0" width="100%" bgcolor="white"> <tr><td> <table width="100%" cellpadding="0" cellspacing="0" border="0"> <tr valign="top"><td> <h3 class="epydoc"><span class="sig"><span class="sig-name">disordered_add</span>(<span class="sig-arg">self</span>, <span class="sig-arg">residue</span>)</span> </h3> </td><td align="right" valign="top" ><span class="codelink"><a href="Bio.PDB.Residue-pysrc.html#DisorderedResidue.disordered_add">source code</a></span> </td> </tr></table> <p>Add a residue object and use its resname as key.</p> <p>Arguments: o residue - Residue object</p> <dl class="fields"> <dt>Overrides: <a href="Bio.PDB.Entity.DisorderedEntityWrapper-class.html#disordered_add">Entity.DisorderedEntityWrapper.disordered_add</a> </dt> </dl> </td></tr></table> </div> <br /> <!-- ==================== NAVIGATION BAR ==================== --> <table class="navbar" border="0" width="100%" cellpadding="0" bgcolor="#a0c0ff" cellspacing="0"> <tr valign="middle"> <!-- Tree link --> <th> <a href="module-tree.html">Trees</a> </th> <!-- Index link --> <th> <a href="identifier-index.html">Indices</a> </th> <!-- Help link --> <th> <a href="help.html">Help</a> </th> <th class="navbar" width="100%"></th> </tr> </table> <table border="0" cellpadding="0" 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