Question: I got confused trying to compare protein sequence on different Databases ?
3.5 years ago by
hmlitan2010 • 0
hmlitan2010 • 0 wrote:
I knocked down a protein and now looking for its substrates , so need to be highly confident about my proteins ID .I used the Mass-spectrometer to analyse the samples and got my protein sequences data . After doing the comparison against the right database I got many of the 'unnamed proteins', so I blasted those unknown AA sequences against various sequence search tools, and did compare results in search for the closest homologous sequence .The main issue that I got totally different results,proteins, for blasting the same sequence on different DBs .
what criteria/parameter should I look at or rely on the most in order to be certain about my proteins ID? what is the most reliable factor to select the best hit match that most represents my sequence?
Your help would be highly appreciated.
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