[Electron-transport] one more addition

[Gwinn Giglio, Michelle]

Hi Jen,

I guess we hadn't talked about all of the child terms yet - had we?  Maybe I
wasn't at the meeting for that.

But, looking at the children - I agree with Jim that photosynthetic electron
transport in photosystem I and also the photosystem II terms could be isa
children of photosynthetic electron transport chain (at least the way they
are currently defined.)

Regarding photoihibition - that sounds like some kind of regulatory process
to me so could that have an isa child under a regulation term?

Finally, the remaining children that are undefined - am I mistaken or are
they describing the transport in individual steps in the chain?  If so,
shouldn't these just be covered with function terms?  and obsoleted from
here?

Thanks,

Michelle



On 3/17/08 10:42 AM, "Jennifer Deegan (nee Clark)" <jdeegan at ebi.ac.uk>
wrote:

> Hi,
> 
> Thank you for your comments. Clearly that was not the way to go, so I
> will go back a few steps and explain the problem that I am trying to
> solve, and maybe you will have better ideas.
> 
> I need to find an is_a path to the root (by tomorrow lunchtime GMT) for
> the following terms:
> 
> photosynthetic electron transport in cytochrome b6/f ; GO:0009775
> (undefined)
> 
> photosynthetic electron transport in photosystem I ; GO:0009773
> def: Electrons move from the primary electron acceptor (Quinone, X)
> through a chain of electron transport molecules in the thylakoid
> membrane until they reach ferredoxin which passes the electron to the
> ultimate electron acceptor; NADP.
> 
> photosynthetic electron transport in photosystem II ; GO:0009772
> def: Electrons move from the primary electron acceptor (Quinone, Q)
> through a chain of electron transport molecules in the thylakoid
> membrane until they reach the ultimate electron acceptor of Photosystem
> II, which is plastocyanin (PC). The electron is then passed to the P700
> chlorophyll a molecules of the reaction centre of photosystem I.
> 
> photosynthetic electron transport in plastocyanin ; GO:0009776
> (undefined)
> 
> photosynthetic electron transport in plastoquinone ; GO:0009774
> (undefined)
> 
> Does anybody have any good ideas for how I could do that? I just need to
> make an is_a relationship from the terms up to another term that has a
> direct is_a path up to the term 'biological_process'.
> 
> I am working in the file go/scratch/electron_transport.obo
> http://cvsweb.geneontology.org/cgi-bin/cvsweb.cgi/go/scratch/electron_transpor
> t.obo
> 
> Thanks,
> 
> Jen
> 
>