
<span class="sd">        struct (Structure): Input structure</span>
<span class="sd">        tolerance: length in angstroms used in finding bonded atoms. Two atoms</span>
<span class="sd">            are considered bonded if (radius of atom 1) + (radius of atom 2) +</span>
<span class="sd">            (tolerance) &lt; (distance between atoms 1 and 2). Default</span>
<span class="sd">            value = 0.45, the value used by JMol and Cheon et al.</span>
<span class="sd">        ldict: dictionary of bond l