A new approach to measuring protein backbone protection with high spatial resolution using H/D exchange and electron capture dissociation

Analytical Chemistry

Volumn 85, Issue 19, 2013, Pages 9173-9180

  Abzalimov, Rinat R ^a   Bobst, Cedric E ^a   Kaltashov, Igor A ^a  

^a UNIVERSITY OF MASSACHUSETTS   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CONFORMATIONAL DYNAMICS; ELECTRON CAPTURE DISSOCIATION; HIGH SPATIAL RESOLUTION; HUMAN SERUM TRANSFERRIN; HYDROGEN SCRAMBLING; ION FRAGMENTATION; MODE OF OPERATIONS; SPATIAL RESOLUTION;

CRYSTAL STRUCTURE; GASES; IONS; MASS SPECTROMETRY; PROTEINS;

DISSOCIATION;

RECOMBINANT PROTEIN; TRANSFERRIN;

ARTICLE; BLOOD; CHEMICAL STRUCTURE; CYCLOTRON; DEUTERIUM HYDROGEN EXCHANGE; ELECTRON; FOURIER ANALYSIS; HUMAN; MASS SPECTROMETRY;

CYCLOTRONS; DEUTERIUM EXCHANGE MEASUREMENT; ELECTRONS; FOURIER ANALYSIS; HUMANS; MASS SPECTROMETRY; MODELS, MOLECULAR; RECOMBINANT PROTEINS; TRANSFERRIN;

EID: 84884996292     PISSN: 00032700     EISSN: 15206882     Source Type: Journal    
DOI: 10.1021/ac401868b     Document Type: Article

References (39)

1. Engen, J. R. Analysis of protein conformation and dynamics by hydrogen/deuterium exchange MS Anal. Chem. 2009, 81, 7870-7875
2. Konermann, L.; Pan, J.; Liu, Y.-H. Hydrogen exchange mass spectrometry for studying protein structure and dynamics Chem. Soc. Rev. 2011, 40, 1224-1234
3. Skinner, J. J.; Lim, W. K.; Bédard, S.; Black, B. E.; Englander, S. W. Protein dynamics viewed by hydrogen exchange Protein Sci. 2012, 21, 996-1005
4. Kaltashov, I. A.; Bobst, C. E.; Abzalimov, R. R. Mass spectrometry-based methods to study protein architecture and dynamics Protein Sci. 2013, 22, 530-544
5. Miranker, A.; Robinson, C. V.; Radford, S. E.; Dobson, C. M. Investigation of protein folding by mass spectrometry FASEB J. 1996, 10, 93-101
6. Jaswal, S. S.; Miranker, A. D. Scope and utility of hydrogen exchange as a tool for mapping landscapes Protein Sci. 2007, 16, 2378-2390
7. Konermann, L.; Simmons, D. A. Protein-folding kinetics and mechanisms studied by pulse-labeling and mass spectrometry Mass Spectrom. Rev. 2003, 22, 1-26
8. Konermann, L.; Tong, X.; Pan, Y. Protein structure and dynamics studied by mass spectrometry: H/D exchange, hydroxyl radical labeling, and related approaches J. Mass Spectrom. 2008, 43, 1021-1036
9. Jaswal, S. S. Biological insights from hydrogen exchange mass spectrometry Biochim. Biophys. Acta 2013, 1834, 1188-1201
10. Bobst, C. E.; Thomas, J. J.; Salinas, P.; Savickas, P.; Kaltashov, I. A. Impact of oxidation on protein therapeutics: Conformational dynamics of intact and oxidized acid-β-glucocerebrosidase at near-physiological pH Protein Sci. 2010, 19, 2366-2378
11. Bobst, C. E.; Abzalimov, R. R.; Houde, D.; Kloczewiak, M.; Mhatre, R.; Berkowitz, S. A.; Kaltashov, I. A. Detection and characterization of altered conformations of protein pharmaceuticals using complementary mass spectrometry-based approaches Anal. Chem. 2008, 80, 7473-7481
12. Houde, D.; Berkowitz, S. A.; Engen, J. R. The utility of hydrogen/deuterium exchange mass spectrometry in biopharmaceutical comparability studies J. Pharm. Sci. 2011, 100, 2071-2086
13. Kaltashov, I. A.; Bobst, C. E.; Abzalimov, R. R.; Berkowitz, S. A.; Houde, D. Conformation and dynamics of biopharmaceuticals: Transition of mass spectrometry-based tools from academe to industry J. Am. Soc. Mass Spectrom. 2010, 21, 323-337
14. Ahn, J.; Cao, M.-J.; Yu, Y. Q.; Engen, J. R. Accessing the reproducibility and specificity of pepsin and other aspartic proteases Biochim. Biophys. Acta 2013, 10.1016/j.bbapap.2012.10.003
15. Del Mar, C.; Greenbaum, E. A.; Mayne, L.; Englander, S. W.; Woods, V. L., Jr. Structure and properties of α -synuclein and other amyloids determined at the amino acid level Proc. Natl. Acad. Sci. U.S.A. 2005, 102, 15477-15482
16. Kaltashov, I. A.; Bobst, C. E.; Abzalimov, R. R. H/D exchange and mass spectrometry in the studies of protein conformation and dynamics: Is there a need for a top-down approach? Anal. Chem. 2009, 81, 7892-7899
17. Pan, J.; Han, J.; Borchers, C. H.; Konermann, L. Hydrogen/deuterium exchange mass spectrometry with top-down electron capture dissociation for characterizing structural transitions of a 17 kDa protein J. Am. Chem. Soc. 2009, 131, 12801-12808
18. Abzalimov, R. R.; Kaplan, D. A.; Easterling, M. L.; Kaltashov, I. A. Protein conformations can be probed in top-down HDX-MS experiments utilizing electron transfer dissociation of protein ions without hydrogen scrambling J. Am. Soc. Mass Spectrom. 2009, 20, 1514-1517
19. Pan, J.; Han, J.; Borchers, C. H.; Konermann, L. Conformer-specific hydrogen exchange analysis of Aβ(1-42) oligomers by top-down electron capture dissociation mass spectrometry Anal. Chem. 2011, 83, 5386-5393
20. Pan, J.; Borchers, C. H. Top-down structural analysis of posttranslationally modified proteins by Fourier transform ion cyclotron resonance-MS with hydrogen/deuterium exchange and electron capture dissociation Proteomics 2013, 13, 974-981
21. Deng, Y. Z.; Pan, H.; Smith, D. L. Selective isotope labeling demonstrates that hydrogen exchange at individual peptide amide linkages can be determined by collision-induced dissociation mass spectrometry J. Am. Chem. Soc. 1999, 121, 1966-1967
22. Kim, M. Y.; Maier, C. S.; Reed, D. J.; Deinzer, M. L. Site-specific amide hydrogen/deuterium exchange in E. coli thioredoxins measured by electrospray ionization mass spectrometry J. Am. Chem. Soc. 2001, 123, 9860-9866
23. Rand, K. D.; Zehl, M.; Jensen, O. N.; Jorgensen, T. J. D. Protein hydrogen exchange measured at single-residue resolution by electron transfer dissociation mass spectrometry Anal. Chem. 2009, 81, 5577-5584
24. Huang, R. Y. C.; Garai, K.; Frieden, C.; Gross, M. L. Hydrogen/deuterium exchange and electron-transfer dissociation mass spectrometry determine the interface and dynamics of apolipoprotein E oligomerization Biochemistry 2011, 50, 9273-9282
25. Landgraf, R.; Chalmers, M.; Griffin, P. Automated hydrogen/deuterium exchange electron transfer dissociation high resolution mass spectrometry measured at single-amide resolution J. Am. Soc. Mass Spectrom. 2012, 23, 301-309
26. Kaur, P.; O'Connor, P. B. Use of statistical methods for estimation of total number of charges in a mass spectrometry experiment Anal. Chem. 2004, 76, 2756-2762
27. Zhang, H. M.; Bou-Assaf, G. M.; Emmett, M. R.; Marshall, A. G. Fast reversed-phase liquid chromatography to reduce back exchange and increase throughput in H/D exchange monitored by FT-ICR mass spectrometry J. Am. Soc. Mass Spectrom. 2009, 20, 520-524
28. Bobst, C. E.; Zhang, M.; Kaltashov, I. A. Existence of a noncanonical state of iron-bound transferrin at endosomal pH revealed by hydrogen exchange and mass spectrometry J. Mol. Biol. 2009, 388, 954-967
29. Kaltashov, I. A.; Bobst, C. E.; Zhang, M.; Leverence, R.; Gumerov, D. R. Transferrin as a model system for method development to study structure, dynamics and interactions of metalloproteins using mass spectrometry Biochim. Biophys. Acta 2012, 1820, 417-426
30. MacGillivray, R. T.; Moore, S. A.; Chen, J.; Anderson, B. F.; Baker, H.; Luo, Y.; Bewley, M.; Smith, C. A.; Murphy, M. E.; Wang, Y.; Mason, A. B.; Woodworth, R. C.; Brayer, G. D.; Baker, E. N. Two high-resolution crystal structures of the recombinant N-lobe of human transferrin reveal a structural change implicated in iron release Biochemistry 1998, 37, 7919-7928
31. Bai, Y.; Milne, J. S.; Mayne, L.; Englander, S. W. Primary structure effects on peptide group hydrogen exchange Proteins 1993, 17, 75-86
32. Pan, J.; Han, J.; Borchers, C. H.; Konermann, L. Electron capture dissociation of electrosprayed protein ions for spatially resolved hydrogen exchange measurements J. Am. Chem. Soc. 2008, 130, 11574-11575
33. Zehl, M.; Rand, K. D.; Jensen, O. N.; Jorgensen, T. J. Electron transfer dissociation facilitates the measurement of deuterium incorporation into selectively labeled peptides with single residue resolution J. Am. Chem. Soc. 2008, 130, 17453-17459
34. Abzalimov, R. R.; Kaltashov, I. A. Controlling hydrogen scrambling in multiply charged protein ions during collisional activation: Implications for top-down hydrogen/deuterium exchange MS utilizing collisional activation in the gas phase Anal. Chem. 2010, 82, 942-950
35. Cheng, Y.; Zak, O.; Aisen, P.; Harrison, S. C.; Walz, T. Structure of the human transferrin receptor-transferrin complex Cell 2004, 116, 565-576
36. Eckenroth, B. E.; Steere, A. N.; Chasteen, N. D.; Everse, S. J.; Mason, A. B. How the binding of human transferrin primes the transferrin receptor potentiating iron release at endosomal pH Proc. Natl. Acad. Sci. U.S.A. 2011, 108, 13089-13094
37. Mittag, T.; Kay, L. E.; Forman-Kay, J. D. Protein dynamics and conformational disorder in molecular recognition J. Mol. Recognit. 2010, 23, 105-116
38. Vistoli, G.; Pedretti, A.; Testa, B. Chemodiversity and molecular plasticity: Recognition processes as explored by property spaces Future Med. Chem. 2011, 3, 995-1010
39. Kaltashov, I. A.; Bobst, C. E.; Nguyen, S. N.; Wang, S. Emerging mass spectrometry-based approaches to probe protein-receptor interactions: Focus on overcoming physiological barriers Adv. Drug Delivery Rev. 2013, 65, 1020-1030