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PomBase website v2
MIT License
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small update to InterPro section #895

Closed ValWood closed 6 years ago

ValWood commented 6 years ago

we can make the new "attribute model" a link

from https://github.com/pombase/pombase-chado/issues/690

Some entries in the XML have a new attribute "model". So we have model="2bwnA02" here:

<match id="G3DSA:3.40.640.10" name="G3DSA:3.40.640.10" dbname="CATHGENE3D"
       status="T" model="2bwnA02" evd="HMMPfam">

and model="0046747" here:

<match id="SSF53383" name="SSF53383" dbname="SSF" status="T"
       model="0046747" evd="HMMPfam">

It is:

SUPERFAMILY and Gene3D are a bit different to our other member databases, as they use a set of different HMMs to represent their entries (there is not a 1 entry to 1 HMM relationship). We have now added a link to the exact HMM that a sequence hits for these entries, which is what the model attribute represents. It is only used in SUPERFAMILY and Gene3D matches.

kimrutherford commented 6 years ago

Do the model IDs need to be links? If so, what should they link to?

InterPro show's the model if you hover over a domain but it's not a link.

interpro-gene3d-1

ValWood commented 6 years ago

Oh let's leave this. I'm not sure it will be missed by our users!