In article <3gbenc$and at mserv1.dl.ac.uk> <bionet at cgmvax.cgm.cnrs-gif.fr>
writes:
> >
> >This is much too pesimistic. About one third of all currently known
> >sequences are related to at least one currently known structure.
> >
>> ??? You really mean that 15,000 sequences from Swissprot (for example)
are
> related to at least one entry in the PDB ? I'd be interested in getting
a
> reference on this subject.
>> Cheers,
>> Jean-Loup
>>> ---------------------------------------------------------------------
> Jean-Loup Risler Tel: (33 1) 69 82 31 34
> CNRS Fax: (33 1) 69 07 49 73
> Centre de Genetique Moleculaire Email:
risler at cgmvax.cgm.cnrs-gif.fr
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> ---------------------------------------------------------------------
>>
I have not meant exactly what you said, because I wanted to be
conservative, but it is close enough. Many of the actually related
sequence-structure pairs cannot be detected as such (yet) because the
usual sequence alignments and even threading techniques are not perfect
(yet). You can get the hard numbers in the very nice paper by Orengo,
Jones, Thornton, Nature 372, pp 631, 1994. Sander, Holm et al also did
some nice work along these lines.
Andrej
P.S. My own hard number related to this argument is that about one third
of currently deposited PDB structures have significant sequence similarity
to at least one already deposited PDB structure (>30%).
