https://cyana.org/w/index.php?action=history&feed=atom&title=CYANA_Commands%3A_distances_make 2026-04-09T05:08:15Z Revision history for this page on the wiki MediaWiki 1.45.1 https://cyana.org/w/index.php?title=CYANA_Commands:_distances_make&diff=4528&oldid=prev 2009-01-28T23:35:41Z

<p>1 revision</p> <p><b>New page</b></p><div><br /> == Parameters ==<br /> <br /> ; first=&#039;&#039;string&#039;&#039; (required)<br /> ; second=&#039;&#039;string&#039;&#039; (required)<br /> ; levels=&#039;&#039;integer range&#039;&#039;: (default: -99999..99999)<br /> ; distance=&#039;&#039;real range&#039;&#039;: (default: 0.0..99999.9)<br /> ; upl=&#039;&#039;real&#039;&#039;: (default: 1.0)<br /> ; lol=&#039;&#039;real&#039;&#039;: (default: 1.0)<br /> ; weight=&#039;&#039;real&#039;&#039;: (default: 1.0)<br /> ; confine=&#039;&#039;real&#039;&#039;: (default: 1.0E20)<br /> ; ambiguous <br /> <br /> == Description ==<br /> <br /> This command generates a new distance restraint (an upper limit<br /> unless the option lol is set) of d A between all atoms matching the<br /> first atom selection and those matching the second atom selection. A<br /> weight might be specified.<br /> <br /> This command adds new distance restraints. Distance restraints<br /> are added between atoms selected by the &#039;&#039;&#039;first&#039;&#039;&#039; and &#039;&#039;&#039;second&#039;&#039;&#039; atom<br /> selections, respectively. If, in addition, structures are present,<br /> then distance restraints will be added only for atom pairs for which<br /> the average distance in the selected structures is within the range<br /> given by the &#039;&#039;&#039;distance&#039;&#039;&#039; parameter.<br /> <br /> The upper distance bound, the lower distance bound, the relative<br /> weight, and the violation confinement limit are set as defined by the<br /> &#039;&#039;&#039;upl&#039;&#039;&#039;, &#039;&#039;&#039;lol&#039;&#039;&#039;, &#039;&#039;&#039;weight&#039;&#039;&#039;, and &#039;&#039;&#039;confine&#039;&#039;&#039; parameters.</div>

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