Jump to content

  • Log in with Facebook Log in with Twitter Log in with Windows Live Log In with Google      Sign In   
  • Create Account

Submit your paper to J Biol Methods today!
Photo
- - - - -

Mass Spec Results - mistaken as another isoform?


  • Please log in to reply
1 reply to this topic

#1 Photoreceptor

Photoreceptor

    member

  • Members
  • Pip
  • 4 posts
0
Neutral

Posted 14 February 2013 - 12:59 PM

Hi,
The protein I'm working with has a few isoforms sharing high similarity, and all of which showed up in the mass spec results. Upon analyzing the peptides from the other isoforms, they seem be to very similar to the isoform of interest.

For example:
EVPVVHTETK - peptide from the mass spec result (from a related isoform)
EVP I VQTETK - peptide from the isoform under study

Could the identification process 'mistakenly' assigned to a different isoform? If so, how about this? How many amino acid differences would consider as real?

LTSTDTIPK - peptide from the mass spec result (from a related isoform)
LVSPEQPPK - peptide from the isoform under study

Thanks.

#2 neuron

neuron

    Veteran

  • Active Members
  • PipPipPipPipPipPipPipPipPipPip
  • 187 posts
5
Neutral

Posted 14 February 2013 - 10:06 PM

According to my experience in mass spectrometry it is possible that it has taken another isoform by mistake. But I may be wrong also. Is this de-novo sequencing or you used some server to match the sequence to database? Because if we match with the database then chances of error are more. Also in isoforms where one amino acid can also make a difference, I have seen papers where people use multiple enzymes to digest protein and get the same sequence to confirm the results.




Home - About - Terms of Service - Privacy - Contact Us

©1999-2013 Protocol Online, All rights reserved.