I wish Paul, that at least SOME of the great info that coot prints to the
screen then scrolls out of sight could be directed to a
"very-useful-things-to-remember" box..
Eleanor
On Apr 4 2012, Paul Emsley wrote:
>On 03/04/12 21:51, Ursula Schulze-Gahmen wrote:
>> When superimposing 2 structures in coot, I get a core rmsd in the
>> output. What does this mean? Which residues are included in the core
>> rmsd? Are these all the residues that have equivalent residues in the
>> moving and reference molecule?
>>
>
>It is the r.m.s.d. (after superposition) of the aligned C-alphas - yes
>they have equivalent residues.
>The residues are tabulated in the output after:
>Moving Reference Distance
>
>Krissinel E, Henrick K
>Secondary-structure matching (SSM), a new tool for fast protein
>structure alignment in three dimensions
>ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY 60,
>2256-2268, 2004.
>
>http://journals.iucr.org/d/issues/2004/12/01/ba5056/ba5056.pdf (Open
>Access)
>
>HTH,
>
>Paul.
>
--
Professor Eleanor Dodson
YSNL, Dept of Chemistry
University of York
Heslington YO10 5YW
tel: 00 44 1904 328259
Fax: 00 44 1904 328266
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