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<!DOCTYPE html><html lang="en" style="font-size:16px"><head><meta charset="utf-8"><meta name="viewport" content="width=device-width,initial-scale=1"><meta name="Author" content="David Koes & 3Dmoljs Contributors"><meta name="Description" content="A modern, object-oriented JavaScript library for visualizing molecular data"><title>Interface: AtomSelectionSpec</title><!--[if lt IE 9]>
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xlink:href="#dark-theme-icon"></use></svg></button></div><div class="navbar-right-item"><button class="icon-button font-size" aria-label="change-font-size"><svg><use xlink:href="#font-size-icon"></use></svg></button></div></div><nav></nav></nav></div><div class="toc-container"><div class="toc-content"><span class="bold">On this page</span><div id="eed4d2a0bfd64539bb9df78095dec881"></div></div></div><div class="body-wrapper"><div class="main-content"><div class="main-wrapper"><section><header><h1 id="AtomSelectionSpec-title" class="has-anchor">AtomSelectionSpec</h1></header><article><div class="container-overview"><div class="description"><p>Atom selection object. Used to specify what atoms should be selected. Can include<br>any field from <a href="AtomSpec.html"><code>AtomSpec</code></a> in which case atoms must equal the specified value.<br>All fields must match for the selection to hold. If values<br>are provided as a list, then only one value of the list must match.</p></div><dl class="details"><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h2 id="example" class="has-anchor">Example</h2><div class="rel"><pre class="prettyprint"><code>$3Dmol.download("pdb:2EJ0",viewer,{},function(){
viewer.setStyle({chain:'B'},{cartoon:{color:'spectrum'}});
viewer.setStyle({chain:'B',invert:true},{cartoon:{}});
viewer.setStyle({bonds: 0},{sphere:{radius:0.5}}); //water molecules
viewer.setStyle({resn:'PMP',byres:true,expand:5},{stick:{colorscheme:"greenCarbon"}});
viewer.setStyle({resi:["91-95","42-50"]},{cartoon:{color:"green",thickness:1.0}});
viewer.render();
});</code></pre></div></div><h2 id="Extends" class="subsection-title has-anchor">Extends</h2><ul><li><a href="AtomSpec.html">AtomSpec</a></li></ul><h2 id="members" class="subsection-title has-anchor">Members</h2><h3 class="name has-anchor" id="and"><span class="type-signature"></span>and<span class="type-signature"> :Array|object</span></h3><div class="description"><p>take the intersection of the provided lists of <a href="AtomSelectionSpec.html"><code>AtomSelectionSpec</code></a>s</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">Array</span> |<wbr> <span class="param-type">object</span></li></ul></div><b class="subsection-title">Properties</b><div class="allow-overflow"><table class="props"><thead><tr><th>Name</th><th>Type</th><th>Attributes</th><th class="last">Description</th></tr></thead><tbody><tr><td class="name"><code>___cached_results</code></td><td class="type"><span class="param-type">any</span></td><td class="attributes"><optional><br></td><td class="description last"></td></tr></tbody></table></div><dl class="details"><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="atom"><span class="type-signature"></span>atom<span class="type-signature"> :string</span></h3><div class="description"><p>Atom name; may be more specific than 'elem' (e.g 'CA' for alpha carbon)</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">string</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#atom">AtomSpec#atom</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="b"><span class="type-signature"></span>b<span class="type-signature"> :number</span></h3><div class="description"><p>Atom b factor data</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">number</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#b">AtomSpec#b</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="bondOrder"><span class="type-signature"></span>bondOrder<span class="type-signature"> :Array</span></h3><div class="description"><p>Array of this atom's bond orders, corresponding to bonds identfied by 'bonds'</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">Array</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#bondOrder">AtomSpec#bondOrder</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="bondStyles"><span class="type-signature"></span>bondStyles<span class="type-signature"> :Array</span></h3><div class="description"><p>custom bond styling by position in bonds</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">Array</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#bondStyles">AtomSpec#bondStyles</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="bonds"><span class="type-signature"></span>bonds<span class="type-signature"> :number</span></h3><div class="description"><p>overloaded to select number of bonds, e.g. {bonds: 0} will select all nonbonded atoms</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">number</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="tag-overrides bold">Overrides</dt><dd class="tag-overrides"><ul><li><a href="AtomSpec.html#bonds">AtomSpec#bonds</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="byres"><span class="type-signature"></span>byres<span class="type-signature"> :boolean</span></h3><div class="description"><p>if set, expands the selection to include all atoms of any residue that has any atom selected</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">boolean</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="callback"><span class="type-signature"></span>callback<span class="type-signature"> :function</span></h3><div class="description"><p>Callback click handler function to be executed on this atom and its parent viewer</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">function</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#callback">AtomSpec#callback</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="chain"><span class="type-signature"></span>chain<span class="type-signature"> :string</span></h3><div class="description"><p>Chain this atom belongs to, if specified in input file (e.g 'A' for chain A)</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">string</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#chain">AtomSpec#chain</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="clickable"><span class="type-signature"></span>clickable<span class="type-signature"> :boolean</span></h3><div class="description"><p>Set this flag to true to enable click selection handling for this atom</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">boolean</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#clickable">AtomSpec#clickable</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="color"><span class="type-signature"></span>color<span class="type-signature"> :<a href="global.html#ColorSpec">ColorSpec</a></span></h3><div class="description"><p>Atom's color, as hex code or built-in color string</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type"><a href="global.html#ColorSpec">ColorSpec</a></span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#color">AtomSpec#color</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="elem"><span class="type-signature"></span>elem<span class="type-signature"> :string</span></h3><div class="description"><p>Element abbreviation (e.g. 'H', 'Ca', etc)</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">string</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#elem">AtomSpec#elem</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="expand"><span class="type-signature"></span>expand<span class="type-signature"> :number|string</span></h3><div class="description"><p>expands the selection to include all atoms within a given distance from the selection</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">number</span> |<wbr> <span class="param-type">string</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="frame"><span class="type-signature"></span>frame<span class="type-signature"> :number</span></h3><div class="description"><p>frame index of individual frame to style; will apply to all frames if not set</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">number</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="hetflag"><span class="type-signature"></span>hetflag<span class="type-signature"> :boolean</span></h3><div class="description"><p>Set to true if atom is a heteroatom</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">boolean</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#hetflag">AtomSpec#hetflag</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="hover_callback"><span class="type-signature"></span>hover_callback<span class="type-signature"> :function</span></h3><div class="description"><p>Callback hover handler function to be executed on this atom and its parent viewer</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">function</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#hover_callback">AtomSpec#hover_callback</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="hoverable"><span class="type-signature"></span>hoverable<span class="type-signature"> :boolean</span></h3><div class="description"><p>Set this flag to true to enable hover selection handling for this atom</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">boolean</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#hoverable">AtomSpec#hoverable</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="index"><span class="type-signature"></span>index<span class="type-signature"> :number|Array</span></h3><div class="description"><p>index of the atom or atoms to select</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">number</span> |<wbr> <span class="param-type">Array</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="tag-overrides bold">Overrides</dt><dd class="tag-overrides"><ul><li><a href="AtomSpec.html#index">AtomSpec#index</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="invert"><span class="type-signature"></span>invert<span class="type-signature"> :boolean</span></h3><div class="description"><p>if set, inverts the meaning of the selection</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">boolean</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="tag-overrides bold">Overrides</dt><dd class="tag-overrides"><ul><li><a href="AtomSpec.html#invert">AtomSpec#invert</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="lchain"><span class="type-signature"></span>lchain<span class="type-signature"> :string</span></h3><div class="description"><p>Label chain (not author)</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">string</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#lchain">AtomSpec#lchain</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="lresi"><span class="type-signature"></span>lresi<span class="type-signature"> :number</span></h3><div class="description"><p>Label residues number (not author)</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">number</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#lresi">AtomSpec#lresi</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="lresn"><span class="type-signature"></span>lresn<span class="type-signature"> :string</span></h3><div class="description"><p>Residue label name</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">string</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#lresn">AtomSpec#lresn</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="model"><span class="type-signature"></span>model<span class="type-signature"> :<a href="GLModel.html">GLModel</a>|number|Array|Array</span></h3><div class="description"><p>a single model or list of models from which atoms should be selected. Can also specify by numerical creation order. Reverse indexing is allowed (-1 specifies last added model).</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type"><a href="GLModel.html">GLModel</a></span> |<wbr> <span class="param-type">number</span> |<wbr> <span class="param-type">Array</span> |<wbr> <span class="param-type">Array</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="not"><span class="type-signature"></span>not<span class="type-signature"> :<a href="AtomSelectionSpec.html">AtomSelectionSpec</a></span></h3><div class="description"><p>take the inverse of the provided <a href="AtomSelectionSpec.html"><code>AtomSelectionSpec</code></a></p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type"><a href="AtomSelectionSpec.html">AtomSelectionSpec</a></span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="or"><span class="type-signature"></span>or<span class="type-signature"> :Array|object</span></h3><div class="description"><p>take the union of the provided lists of <a href="AtomSelectionSpec.html"><code>AtomSelectionSpec</code></a>s</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">Array</span> |<wbr> <span class="param-type">object</span></li></ul></div><b class="subsection-title">Properties</b><div class="allow-overflow"><table class="props"><thead><tr><th>Name</th><th>Type</th><th>Attributes</th><th class="last">Description</th></tr></thead><tbody><tr><td class="name"><code>___cached_results</code></td><td class="type"><span class="param-type">any</span></td><td class="attributes"><optional><br></td><td class="description last"></td></tr></tbody></table></div><dl class="details"><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="pdbline"><span class="type-signature"></span>pdbline<span class="type-signature"> :string</span></h3><div class="description"><p>If applicable, this atom's record entry from the input PDB file (used to output new PDB from models)</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">string</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#pdbline">AtomSpec#pdbline</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="predicate"><span class="type-signature"></span>predicate<span class="type-signature"> :function</span></h3><div class="description"><p>user supplied function that gets passed an <a href="AtomSpec.html"><code>AtomSpec</code></a> and should return true if the atom should be selected</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">function</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="properties"><span class="type-signature"></span>properties<span class="type-signature"> :Record.<string, any></span></h3><div class="description"><p>Optional mapping of additional properties</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">Record.<string, any></span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#properties">AtomSpec#properties</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="resi"><span class="type-signature"></span>resi<span class="type-signature"> :number|SelectionRange|Array</span></h3><div class="description"><p>overloaded to allow ranges and lists of residues, e.g. {resi: "5-10"} or {resi: [5,10,32]}</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">number</span> |<wbr> <span class="param-type">SelectionRange</span> |<wbr> <span class="param-type">Array</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="tag-overrides bold">Overrides</dt><dd class="tag-overrides"><ul><li><a href="AtomSpec.html#resi">AtomSpec#resi</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="resn"><span class="type-signature"></span>resn<span class="type-signature"> :string</span></h3><div class="description"><p>Parent residue name</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">string</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#resn">AtomSpec#resn</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="serial"><span class="type-signature"></span>serial<span class="type-signature"> :number</span></h3><div class="description"><p>Atom's serial id number</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">number</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#serial">AtomSpec#serial</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="singleBonds"><span class="type-signature"></span>singleBonds<span class="type-signature"> :boolean</span></h3><div class="description"><p>true if this atom forms only single bonds or no bonds at all</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">boolean</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#singleBonds">AtomSpec#singleBonds</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="ss"><span class="type-signature"></span>ss<span class="type-signature"> :string</span></h3><div class="description"><p>Secondary structure identifier (for cartoon render; e.g. 'h' for helix)</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">string</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#ss">AtomSpec#ss</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="style"><span class="type-signature"></span>style<span class="type-signature"> :<a href="AtomStyleSpec.html">AtomStyleSpec</a></span></h3><div class="description"><p>style of atom</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type"><a href="AtomStyleSpec.html">AtomStyleSpec</a></span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#style">AtomSpec#style</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="surfaceColor"><span class="type-signature"></span>surfaceColor<span class="type-signature"> :<a href="global.html#ColorSpec">ColorSpec</a></span></h3><div class="description"><p>Hex code for color to be used for surface patch over this atom</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type"><a href="global.html#ColorSpec">ColorSpec</a></span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#surfaceColor">AtomSpec#surfaceColor</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="unhover_callback"><span class="type-signature"></span>unhover_callback<span class="type-signature"> :function</span></h3><div class="description"><p>Callback handling "unhover" to be executed on this atom and its parent viewer</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">function</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#unhover_callback">AtomSpec#unhover_callback</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="within"><span class="type-signature"></span>within<span class="type-signature"> :<a href="WithinSelectionSpec.html">WithinSelectionSpec</a></span></h3><div class="description"><p>intersects the selection with the set of atoms within a given distance from another selection</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type"><a href="WithinSelectionSpec.html">WithinSelectionSpec</a></span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="x"><span class="type-signature"></span>x<span class="type-signature"> :number</span></h3><div class="description"><p>Atom's x coordinate</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">number</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#x">AtomSpec#x</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="y"><span class="type-signature"></span>y<span class="type-signature"> :number</span></h3><div class="description"><p>Atom's y coordinate</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">number</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#y">AtomSpec#y</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl><h3 class="name has-anchor" id="z"><span class="type-signature"></span>z<span class="type-signature"> :number</span></h3><div class="description"><p>Atom's z coordinate</p></div><div class="member-item-container flex"><strong>Type:</strong><ul><li><span class="param-type">number</span></li></ul></div><dl class="details"><div class="details-item-container"><dt class="inherited-from bold">Inherited From</dt><dd class="inherited-from"><ul><li><a href="AtomSpec.html#z">AtomSpec#z</a></li></ul></dd></div><div class="details-item-container"><dt class="tag-source bold">Source</dt><dd class="tag-source"><ul><li><a href="specs.ts.html">specs.ts</a></li></ul></dd></div></dl></article></section><footer class="footer" id="PeOAagUepe"><div class="wrapper">3Dmol.js © 2019-2024 | <a href="https://pitt.edu/" target="_blank">University of Pittsburgh</a> | <a href="https://github.com/3dmol/3Dmol.js/blob/master/LICENSE" target="_blank">License</a></div></footer></div></div></div><div class="search-container" id="PkfLWpAbet" style="display:none"><div class="wrapper" id="iCxFxjkHbP"><button class="icon-button search-close-button" id="VjLlGakifb" aria-label="close search"><svg><use 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