Measurement of deamidation of intact proteins by isotopic envelope and mass defect with ion cyclotron resonance Fourier transform mass spectrometry

Noah E. Robinson, Vlad Zabrouskov, Jennifer Zhang, Kirsten Lampi, Arthur B. Robinson

Research output: Contribution to journalArticle

28 Citations (Scopus)

Abstract

After synthesis and folding, proteins undergo many post-synthetic modifications, including cleavage, oxidation, glycosylation, methylation, racemization, phosphorylation, and deamidation. Of these modifications, non-enymatic deamidation is the most prevalent. Each asparaginyl and glutaminyl residue in a protein is a miniature molecular clock that deamidates with a genetically determined half-time. These half-times vary from a few hours to more than a century, depending on a primary, secondary, tertiary, and quaternary structure near the amide residue. It has been suggested that these clocks regulate many biological processes. A few such processes have been discovered. These discoveries have been difficult because deamidation is inconvenient to measure. While most post-synthetic changes are easily measured by mass spectrometry, deamidation increases molecular mass by only one nominal Dalton, so the deamidated isotopic envelope overlaps the undeamidated isotopic envelope. While peptide deamidation rate determination through deconvolution of these envelopes has been accomplished for several hundred peptides, deconvolution becomes more difficult as the molecular weight increases. In high-resolution mass spectrometers, this deconvolution is possible for larger molecules and an alternative method based on the 19 mDa mass defect between the deamidated envelope and the isotopic envelope of protein fragments can also be utilized. We herein report a comparison of the envelope deconvolution and the mass defect methods for measurement of deamidation in human eye lens crystalline, with special emphasis on βB2 crystallin and γS crystallin. Measurement of extent of deamidation of βB2 crystallin in a 7 Tesla ion cyclotron resonance Fourier transform mass spectrometer is found to be accurate to a relative standard deviation in a single measurement of about 4% for each method. The envelope deconvolution method is further illustrated by detection of deamidation in intact γS crystallin, a 20 904 Da protein, and discovery of the principal γS deamidation site.

Original languageEnglish (US)
Pages (from-to)3535-3541
Number of pages7
JournalRapid Communications in Mass Spectrometry
Volume20
Issue number23
DOIs
StatePublished - 2006

Fingerprint

Cyclotron resonance
Deconvolution
Crystallins
Mass spectrometry
Fourier transforms
Ions
Defects
Mass spectrometers
Proteins
Clocks
Glycosylation
Protein folding
Peptides
Phosphorylation
Methylation
Molecular mass
Amides
Lenses
Molecular weight
Crystalline materials

ASJC Scopus subject areas

  • Analytical Chemistry
  • Spectroscopy

Cite this

Measurement of deamidation of intact proteins by isotopic envelope and mass defect with ion cyclotron resonance Fourier transform mass spectrometry. / Robinson, Noah E.; Zabrouskov, Vlad; Zhang, Jennifer; Lampi, Kirsten; Robinson, Arthur B.

In: Rapid Communications in Mass Spectrometry, Vol. 20, No. 23, 2006, p. 3535-3541.

Research output: Contribution to journalArticle

@article{753fe42147ac4fa283319510d64caaed,
title = "Measurement of deamidation of intact proteins by isotopic envelope and mass defect with ion cyclotron resonance Fourier transform mass spectrometry",
abstract = "After synthesis and folding, proteins undergo many post-synthetic modifications, including cleavage, oxidation, glycosylation, methylation, racemization, phosphorylation, and deamidation. Of these modifications, non-enymatic deamidation is the most prevalent. Each asparaginyl and glutaminyl residue in a protein is a miniature molecular clock that deamidates with a genetically determined half-time. These half-times vary from a few hours to more than a century, depending on a primary, secondary, tertiary, and quaternary structure near the amide residue. It has been suggested that these clocks regulate many biological processes. A few such processes have been discovered. These discoveries have been difficult because deamidation is inconvenient to measure. While most post-synthetic changes are easily measured by mass spectrometry, deamidation increases molecular mass by only one nominal Dalton, so the deamidated isotopic envelope overlaps the undeamidated isotopic envelope. While peptide deamidation rate determination through deconvolution of these envelopes has been accomplished for several hundred peptides, deconvolution becomes more difficult as the molecular weight increases. In high-resolution mass spectrometers, this deconvolution is possible for larger molecules and an alternative method based on the 19 mDa mass defect between the deamidated envelope and the isotopic envelope of protein fragments can also be utilized. We herein report a comparison of the envelope deconvolution and the mass defect methods for measurement of deamidation in human eye lens crystalline, with special emphasis on βB2 crystallin and γS crystallin. Measurement of extent of deamidation of βB2 crystallin in a 7 Tesla ion cyclotron resonance Fourier transform mass spectrometer is found to be accurate to a relative standard deviation in a single measurement of about 4{\%} for each method. The envelope deconvolution method is further illustrated by detection of deamidation in intact γS crystallin, a 20 904 Da protein, and discovery of the principal γS deamidation site.",
author = "Robinson, {Noah E.} and Vlad Zabrouskov and Jennifer Zhang and Kirsten Lampi and Robinson, {Arthur B.}",
year = "2006",
doi = "10.1002/rcm.2767",
language = "English (US)",
volume = "20",
pages = "3535--3541",
journal = "Rapid Communications in Mass Spectrometry",
issn = "0951-4198",
publisher = "John Wiley and Sons Ltd",
number = "23",

}

TY - JOUR

T1 - Measurement of deamidation of intact proteins by isotopic envelope and mass defect with ion cyclotron resonance Fourier transform mass spectrometry

AU - Robinson, Noah E.

AU - Zabrouskov, Vlad

AU - Zhang, Jennifer

AU - Lampi, Kirsten

AU - Robinson, Arthur B.

PY - 2006

Y1 - 2006

N2 - After synthesis and folding, proteins undergo many post-synthetic modifications, including cleavage, oxidation, glycosylation, methylation, racemization, phosphorylation, and deamidation. Of these modifications, non-enymatic deamidation is the most prevalent. Each asparaginyl and glutaminyl residue in a protein is a miniature molecular clock that deamidates with a genetically determined half-time. These half-times vary from a few hours to more than a century, depending on a primary, secondary, tertiary, and quaternary structure near the amide residue. It has been suggested that these clocks regulate many biological processes. A few such processes have been discovered. These discoveries have been difficult because deamidation is inconvenient to measure. While most post-synthetic changes are easily measured by mass spectrometry, deamidation increases molecular mass by only one nominal Dalton, so the deamidated isotopic envelope overlaps the undeamidated isotopic envelope. While peptide deamidation rate determination through deconvolution of these envelopes has been accomplished for several hundred peptides, deconvolution becomes more difficult as the molecular weight increases. In high-resolution mass spectrometers, this deconvolution is possible for larger molecules and an alternative method based on the 19 mDa mass defect between the deamidated envelope and the isotopic envelope of protein fragments can also be utilized. We herein report a comparison of the envelope deconvolution and the mass defect methods for measurement of deamidation in human eye lens crystalline, with special emphasis on βB2 crystallin and γS crystallin. Measurement of extent of deamidation of βB2 crystallin in a 7 Tesla ion cyclotron resonance Fourier transform mass spectrometer is found to be accurate to a relative standard deviation in a single measurement of about 4% for each method. The envelope deconvolution method is further illustrated by detection of deamidation in intact γS crystallin, a 20 904 Da protein, and discovery of the principal γS deamidation site.

AB - After synthesis and folding, proteins undergo many post-synthetic modifications, including cleavage, oxidation, glycosylation, methylation, racemization, phosphorylation, and deamidation. Of these modifications, non-enymatic deamidation is the most prevalent. Each asparaginyl and glutaminyl residue in a protein is a miniature molecular clock that deamidates with a genetically determined half-time. These half-times vary from a few hours to more than a century, depending on a primary, secondary, tertiary, and quaternary structure near the amide residue. It has been suggested that these clocks regulate many biological processes. A few such processes have been discovered. These discoveries have been difficult because deamidation is inconvenient to measure. While most post-synthetic changes are easily measured by mass spectrometry, deamidation increases molecular mass by only one nominal Dalton, so the deamidated isotopic envelope overlaps the undeamidated isotopic envelope. While peptide deamidation rate determination through deconvolution of these envelopes has been accomplished for several hundred peptides, deconvolution becomes more difficult as the molecular weight increases. In high-resolution mass spectrometers, this deconvolution is possible for larger molecules and an alternative method based on the 19 mDa mass defect between the deamidated envelope and the isotopic envelope of protein fragments can also be utilized. We herein report a comparison of the envelope deconvolution and the mass defect methods for measurement of deamidation in human eye lens crystalline, with special emphasis on βB2 crystallin and γS crystallin. Measurement of extent of deamidation of βB2 crystallin in a 7 Tesla ion cyclotron resonance Fourier transform mass spectrometer is found to be accurate to a relative standard deviation in a single measurement of about 4% for each method. The envelope deconvolution method is further illustrated by detection of deamidation in intact γS crystallin, a 20 904 Da protein, and discovery of the principal γS deamidation site.

UR - http://www.scopus.com/inward/record.url?scp=33845300569&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=33845300569&partnerID=8YFLogxK

U2 - 10.1002/rcm.2767

DO - 10.1002/rcm.2767

M3 - Article

C2 - 17078105

AN - SCOPUS:33845300569

VL - 20

SP - 3535

EP - 3541

JO - Rapid Communications in Mass Spectrometry

JF - Rapid Communications in Mass Spectrometry

SN - 0951-4198

IS - 23

ER -