Hi all,
I'm certain this can be done, but I figure it would be much easier asking
the news group than spending hours trawling though random web pages:
Does anyone know how to search protein sequence databases using a consensus
sequence which allows varying gap sizes, and homologous amino acids. For
example, say I have a consensus sequence DXXDN - can I scan databases which
will pull out sequences containing, for example, EGGGGDQ?
A quick comment on the structure validation thread... Are bioscientists as
critical of mistakes in protein and genome databases as the crystallography
community seems to be of the PDB? Are mistakes in these databases more or
less common that the PDB? Also, do they require you to submit your raw data
(i.e., sequencing chromatograms, etc)? I feel that a simple improvement in
the current validation tools which would flag unusual data submissions based
on various parameters, and require another expert to go over just these
structures to confirm them, would be sufficient.
Thanks,
AGS
_________________________________________________________________
Find a local pizza place, movie theater, and moreĀ
.then map the best route!
http://maps.live.com/default.aspx?v=2&ss=yp.bars~yp.pizza~yp.movie%20theater&cp=42.358996~-71.056691&style=r&lvl=13&tilt=-90&dir=0&alt=-1000&scene=950607&encType=1&FORM=MGAC01
