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RE: protein entities (was Re: Rules (was Re: Ambiguous names. was: Re: URL +1, LSID -1)

From: Michel_Dumontier <Michel_Dumontier@carleton.ca>
Date: Thu, 19 Jul 2007 16:29:18 -0400
To: Darren Natale <dan5@georgetown.edu>, Michel_Dumontier <Michel_Dumontier@carleton.ca>
Cc: Eric Jain <Eric.Jain@isb-sib.ch>, Alan Ruttenberg <alanruttenberg@gmail.com>, Chris Mungall <cjm@fruitfly.org>, Bijan Parsia <bparsia@cs.man.ac.uk>, public-semweb-lifesci hcls <public-semweb-lifesci@w3.org>
Message-id: <AB349814F1ECB143A5D4CD29C7A645690187DFBB@CCSEXB10.CUNET.CARLETON.CA>

Darren,

> Also, while we recognize
> that there are different qualities that can be ascribed to a basically
> identical biochemical entity in different structural conformations or
> states of ligand binding, we are not attempting (at least in the
> beginning) to describe these structural conformations or bound vs
> unbound forms.

Indeed, while conformation is an important quality of molecular
structure, it does not fundamentally change the nature of the molecule.
i.e. a protein in a bound or unbound state should still be considered
the same protein. 

Cheers,

-=Michel=-
 
Received on Thursday, 19 July 2007 20:33:17 GMT

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