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I too am curious how a modifier can have a stoichiometry, that is a true
modifier not a molecule that is explicitly described as a binding
reaction, eg a WMC model of an allosteric enzyme.

Herbert

-----Original Message-----
From: Pedro Mendes [mailto:mendes@vbi.vt.edu]
Sent: Monday, April 25, 2005 12:40 PM
To: sbml-discuss@caltech.edu
Subject: Re: [sbml-discuss] stoichiometries of modifiers

I'm rather intrigued by this "modifier stoichiometry". Modifiers do not
even have to bind anything, so I don't think the concept of
stoichiometry applies here. The way in which a modifier modifies the
rate of reaction is explicit on the rate law.

Pedro

On Monday 25 April 2005 12:56 pm, Hiroyuki Kuwahara wrote:
> Hi,
>
> I'd just like to know why SBML does not support stoichiometries of
> modifiers. This is fine for ODE simulation, but not for discrete
> stochastic simulation. The workaround, of course, is to express a
> modifier as both a reactant and a product with an appropriate
> stoichiometry. But if this is how it's supposed to be, then we don't
> even need a modifier field.
>
> Thanks,
>
> Hiro

--
Pedro Mendes
Research Associate Professor
Virginia Bioinformatics Institute,
Virginia Tech, Washington St.,
Blacksburg, VA 24061-0477, USA
http://mendes.vbi.vt.edu fax:+1-540-231-2606