Advances and challenges in analytical characterization of biotechnology products: mass spectrometry-based approaches to study properties and behavior of protein therapeutics.

Biopharmaceuticals are a unique class of medicines due to their extreme structural complexity. The structure of these therapeutic proteins is critically important for their efficacy and safety, and the ability to characterize it at various levels (from sequence to conformation) is critical not only at the quality control stage, but also throughout the discovery and design stages. Biological mass spectrometry (MS) offers a variety of approaches to study structure and behavior of complex protein drugs and has already become a default tool for characterizing the covalent structure of protein therapeutics, including sequence and post-translational modifications. Recently, MS-based methods have also begun enjoying a dramatic growth in popularity as a means to provide information on higher order structure and dynamics of biotechnology products. In particular, hydrogen/deuterium exchange MS and charge state distribution analysis of protein ions in electrospray ionization (ESI) MS offer a convenient way to assess the integrity of protein conformation. Native ESI MS also allows the interactions of protein drugs with their therapeutic targets and other physiological partners to be monitored using simple model systems. MS-based methods are also applied to study pharmacokinetics of biopharmaceutical products, where they begin to rival traditional immunoassays. MS already provides valuable support to all stages of development of biopharmaceuticals, from discovery to post-approval monitoring, and its impact on the field of biopharmaceutical analysis will undoubtedly continue to grow.

[1]  K. Standing Peptide and protein de novo sequencing by mass spectrometry. , 2003, Current opinion in structural biology.

[2]  L. Ilag,et al.  Discrimination among IgG1-κ monoclonal antibodies produced by two cell lines using charge state distributions in nanoESI-TOF mass spectra , 2009, Journal of the American Society for Mass Spectrometry.

[3]  Lihua Huang,et al.  Elucidation of PEGylation site with a combined approach of in-source fragmentation and CID MS/MS , 2010, Journal of the American Society for Mass Spectrometry.

[4]  André M Deelder,et al.  IgG glycosylation analysis , 2009, Proteomics.

[5]  Sheng Yin,et al.  Mass spectrometry detection and characterization of noncovalent protein complexes. , 2009, Methods in molecular biology.

[6]  C. Fenselau A review of quantitative methods for proteomic studies. , 2007, Journal of chromatography. B, Analytical technologies in the biomedical and life sciences.

[7]  Damian Houde,et al.  Post-translational Modifications Differentially Affect IgG1 Conformation and Receptor Binding* , 2010, Molecular & Cellular Proteomics.

[8]  A. Lazar,et al.  Analysis of the composition of immunoconjugates using size-exclusion chromatography coupled to mass spectrometry. , 2005, Rapid communications in mass spectrometry : RCM.

[9]  P. Bondarenko,et al.  Top-down N-terminal sequencing of Immunoglobulin subunits with electrospray ionization time of flight mass spectrometry. , 2009, Analytical biochemistry.

[10]  Darin L. Lee,et al.  Preparation and characterization of monopegylated human granulocyte-macrophage colony-stimulating factor. , 2008, Journal of interferon & cytokine research : the official journal of the International Society for Interferon and Cytokine Research.

[11]  J. Zaia Mass spectrometry of oligosaccharides. , 2004, Mass spectrometry reviews.

[12]  John F. Valliere-Douglass,et al.  Molecular mass analysis of antibodies by on-line SEC-MS , 2008, Journal of the American Society for Mass Spectrometry.

[13]  J. Bowie,et al.  Identification of intermolecular disulfide linkages in underivatised peptides using negative ion electrospray mass spectrometry. A joint experimental and theoretical study. , 2007, Rapid communications in mass spectrometry : RCM.

[14]  A. Lim,et al.  Applications of mass spectrometry for the structural characterization of recombinant protein pharmaceuticals. , 2007, Mass spectrometry reviews.

[15]  A. Schacher,et al.  Isolation, structural characterization, and antiviral activity of positional isomers of monopegylated interferon alpha-2a (PEGASYS). , 2003, Protein expression and purification.

[16]  P. Schnier,et al.  Gas-phase proton-transfer chemistry coupled with TOF mass spectrometry and ion mobility-MS for the facile analysis of poly(ethylene glycols) and PEGylated polypeptide conjugates. , 2008, Analytical chemistry.

[17]  M. Rossi,et al.  Characterisation of a Novel Growth Hormone Variant Comprising a Thioether Link between Cys182 and Cys189 , 2007, ChemMedChem.

[18]  Sandeep Kumar,et al.  Potential aggregation prone regions in biotherapeutics , 2009, mAbs.

[19]  Gerd R Kleemann,et al.  Optimization of a reversed-phase high-performance liquid chromatography/mass spectrometry method for characterizing recombinant antibody heterogeneity and stability. , 2006, Journal of chromatography. A.

[20]  V. Gaberc-Porekar,et al.  Obstacles and pitfalls in the PEGylation of therapeutic proteins. , 2008, Current opinion in drug discovery & development.

[21]  Rashmi Kshirsagar,et al.  Characterization of trisulfide modification in antibodies. , 2010, Analytical biochemistry.

[22]  Lars Konermann,et al.  Mass spectrometry combined with oxidative labeling for exploring protein structure and folding. , 2010, Mass spectrometry reviews.

[23]  P. Schnier,et al.  Resolving disulfide structural isoforms of IgG2 monoclonal antibodies by ion mobility mass spectrometry. , 2010, Analytical chemistry.

[24]  N. Sadagopan,et al.  A universal strategy for development of a method for absolute quantification of therapeutic monoclonal antibodies in biological matrices using differential dimethyl labeling coupled with ultra performance liquid chromatography-tandem mass spectrometry. , 2009, Analytical chemistry.

[25]  Mathieu Dubois,et al.  Bioanalysis of recombinant proteins and antibodies by mass spectrometry. , 2009, The Analyst.

[26]  J. Loo,et al.  Studying noncovalent protein complexes by electrospray ionization mass spectrometry. , 1997, Mass spectrometry reviews.

[27]  Katalin F Medzihradszky,et al.  Peptide sequence analysis. , 2005, Methods in enzymology.

[28]  C. Fenselau Beyond gene sequencing: analysis of protein structure with mass spectrometry. , 1991, Annual review of biophysics and biophysical chemistry.

[29]  Steven L. Cohen,et al.  Evidence for trisulfide bonds in a recombinant variant of a human IgG2 monoclonal antibody. , 2009, Analytical chemistry.

[30]  S. Tobler,et al.  Structural features of interferon‐γ aggregation revealed by hydrogen exchange , 2002 .

[31]  M. Gross,et al.  Protein-peptide affinity determination using an H/D exchange dilution strategy: Application to antigen-antibody interactions , 2010, Journal of the American Society for Mass Spectrometry.

[32]  William F Weiss,et al.  Principles, approaches, and challenges for predicting protein aggregation rates and shelf life. , 2009, Journal of pharmaceutical sciences.

[33]  S. Harrison,et al.  Single particle reconstruction of the human apo-transferrin-transferrin receptor complex. , 2005, Journal of structural biology.

[34]  C. Dempsey Hydrogen exchange in peptides and proteins using NMR spectroscopy , 2001 .

[35]  G. Anderson,et al.  Bio-affinity characterization mass spectrometry. , 1995, Rapid communications in mass spectrometry : RCM.

[36]  Mingxuan Zhang,et al.  Mapping of protein disulfide bonds using negative ion fragmentation with a broadband precursor selection. , 2006, Analytical chemistry.

[37]  Huijuan Li,et al.  Pharmacological significance of glycosylation in therapeutic proteins. , 2009, Current opinion in biotechnology.

[38]  W. Lehmann,et al.  De novo sequencing of peptides by MS/MS , 2010, Proteomics.

[39]  E. Higgins Carbohydrate analysis throughout the development of a protein therapeutic , 2009, Glycoconjugate Journal.

[40]  Zhongqi Zhang,et al.  Mass spectrometry for structural characterization of therapeutic antibodies. , 2009, Mass spectrometry reviews.

[41]  Z. Shriver,et al.  Assessment of the quality and structural integrity of a complex glycoprotein mixture following extraction from the formulated biopharmaceutical drug product. , 2011, Journal of pharmaceutical and biomedical analysis.

[42]  S. Berkowitz,et al.  Conformation and dynamics of biopharmaceuticals: Transition of mass spectrometry-based tools from academe to industry , 2010, Journal of the American Society for Mass Spectrometry.

[43]  Vasco Filipe,et al.  Mass Spectrometric Analysis of Intact Human Monoclonal Antibody Aggregates Fractionated by Size-Exclusion Chromatography , 2010, Pharmaceutical Research.

[44]  Wei-Chiang Shen,et al.  Insertion of the Designed Helical Linker Led to Increased Expression of Tf-Based Fusion Proteins , 2009, Pharmaceutical Research.

[45]  I. Kaltashov,et al.  Do ionic charges in ESI MS provide useful information on macromolecular structure? , 2008, Journal of the American Society for Mass Spectrometry.

[46]  Pauline M Rudd,et al.  A systematic approach to protein glycosylation analysis: a path through the maze. , 2010, Nature chemical biology.

[47]  W. Hancock,et al.  Mass spectrometric analysis of innovator, counterfeit, and follow‐on recombinant human growth hormone , 2009, Biotechnology progress.

[48]  John M Lambert,et al.  Structural characterization of the maytansinoid–monoclonal antibody immunoconjugate, huN901–DM1, by mass spectrometry , 2005, Protein science : a publication of the Protein Society.

[49]  S. Brooks,et al.  Strategies for Analysis of the Glycosylation of Proteins: Current Status and Future Perspectives , 2009, Molecular biotechnology.

[50]  Mingxuan Zhang,et al.  Existence of a noncanonical state of iron-bound transferrin at endosomal pH revealed by hydrogen exchange and mass spectrometry. , 2009, Journal of molecular biology.

[51]  Hongwei Xie,et al.  Rapid comparison of a candidate biosimilar to an innovator monoclonal antibody with advanced liquid chromatography and mass spectrometry technologies , 2010, mAbs.

[52]  Steven C Hall,et al.  Acid-catalyzed oxygen-18 labeling of peptides. , 2009, Analytical chemistry.

[53]  Olivier Heudi,et al.  Towards absolute quantification of therapeutic monoclonal antibody in serum by LC-MS/MS using isotope-labeled antibody standard and protein cleavage isotope dilution mass spectrometry. , 2008, Analytical chemistry.

[54]  A. Mason,et al.  Noncanonical interactions between serum transferrin and transferrin receptor evaluated with electrospray ionization mass spectrometry , 2010, Proceedings of the National Academy of Sciences.

[55]  S. Englander Hydrogen exchange and mass spectrometry: A historical perspective , 2006, Journal of the American Society for Mass Spectrometry.

[56]  I. Kaltashov,et al.  Impact of oxidation on protein therapeutics: Conformational dynamics of intact and oxidized acid‐β‐glucocerebrosidase at near‐physiological pH , 2010, Protein science : a publication of the Protein Society.

[57]  W. Hancock,et al.  Characterization of the glycosylation occupancy and the active site in the follow-on protein therapeutic: TNK-tissue plasminogen activator. , 2010, Analytical chemistry.

[58]  Lihua Huang,et al.  Determination of the mechanism of action of anti-FasL antibody by epitope mapping and homology modeling. , 2009, Biochemistry.

[59]  D. Fabris A eole for the MS analysis of nucleic acids in the post-genomics age , 2010, Journal of the American Society for Mass Spectrometry.

[60]  S. Withers,et al.  Emerging methods for the production of homogeneous human glycoproteins. , 2009, Nature chemical biology.

[61]  H. Michel,et al.  Positional isomers of monopegylated interferon alpha-2a: isolation, characterization, and biological activity. , 1997, Analytical biochemistry.

[62]  G. Allmaier,et al.  MALDI linear TOF mass spectrometry of PEGylated (glyco)proteins. , 2010, Journal of mass spectrometry : JMS.

[63]  F. McLafferty,et al.  Top‐down MS, a powerful complement to the high capabilities of proteolysis proteomics , 2007, The FEBS journal.

[64]  I. Kaltashov,et al.  Direct monitoring of heat-stressed biopolymers with temperature-controlled electrospray ionization mass spectrometry. , 2011, Analytical chemistry.

[65]  Thomas Walz,et al.  Structure of the Human Transferrin Receptor-Transferrin Complex , 2004, Cell.

[66]  Yawen Bai,et al.  Primary structure effects on peptide group hydrogen exchange , 1993, Biochemistry.

[67]  Richard B Greenwald,et al.  Effective drug delivery by PEGylated drug conjugates. , 2003, Advanced drug delivery reviews.

[68]  Igor A Kaltashov,et al.  H/D exchange and mass spectrometry in the studies of protein conformation and dynamics: is there a need for a top-down approach? , 2009, Analytical chemistry.

[69]  Martin R Larsen,et al.  Analysis of posttranslational modifications of proteins by tandem mass spectrometry. , 2006, BioTechniques.

[70]  Wei Wang,et al.  Protein aggregation--pathways and influencing factors. , 2010, International journal of pharmaceutics.

[71]  X. Yao,et al.  18O2-labeling in quantitative proteomic strategies: a status report. , 2009, Journal of proteome research.

[72]  Wei Wang,et al.  Protein aggregation and its inhibition in biopharmaceutics. , 2005, International journal of pharmaceutics.

[73]  G. Grabowski Phenotype, diagnosis, and treatment of Gaucher's disease , 2008, The Lancet.

[74]  Virgil L. Woods,et al.  High resolution, high‐throughput amide deuterium exchange‐mass spectrometry (DXMS) determination of protein binding site structure and dynamics: Utility in pharmaceutical design , 2001, Journal of cellular biochemistry. Supplement.

[75]  S. Tuske,et al.  Epitope mapping by amide hydrogen/deuterium exchange coupled with immobilization of antibody, on-line proteolysis, liquid chromatography and mass spectrometry. , 2009, Rapid communications in mass spectrometry : RCM.

[76]  B. Domon,et al.  Expression, purification, and characterization of rat interferon-beta, and preparation of an N-terminally PEGylated form with improved pharmacokinetic parameters. , 2004, Protein expression and purification.

[77]  Daniel J. Kroon,et al.  Identification of Sites of Degradation in a Therapeutic Monoclonal Antibody by Peptide Mapping , 1992, Pharmaceutical Research.

[78]  P. Bondarenko,et al.  Mass measurement and top-down HPLC/MS analysis of intact monoclonal antibodies on a hybrid linear quadrupole ion trap-orbitrap mass spectrometer , 2009, Journal of the American Society for Mass Spectrometry.

[79]  Shujia Dai,et al.  Quantification of sifuvirtide in monkey plasma by an on-line solid-phase extraction procedure combined with liquid chromatography/electrospray ionization tandem mass spectrometry. , 2005, Rapid communications in mass spectrometry : RCM.

[80]  Rohin Mhatre,et al.  Detection and characterization of altered conformations of protein pharmaceuticals using complementary mass spectrometry-based approaches. , 2008, Analytical chemistry.

[81]  C. Robinson,et al.  Probing molecular interactions in intact antibody: antigen complexes, an electrospray time-of-flight mass spectrometry approach. , 2001, Biophysical journal.

[82]  Igor A Kaltashov,et al.  Studies of biomolecular conformations and conformational dynamics by mass spectrometry. , 2002, Mass spectrometry reviews.

[83]  W. Burkitt,et al.  Conformational changes in oxidatively stressed monoclonal antibodies studied by hydrogen exchange mass spectrometry , 2010, Protein science : a publication of the Protein Society.

[84]  Jiunn H Lin,et al.  Pharmacokinetics of biotech drugs: peptides, proteins and monoclonal antibodies. , 2009, Current drug metabolism.

[85]  Joseph Zaia,et al.  Mass spectrometry and glycomics. , 2010, Omics : a journal of integrative biology.

[86]  S. Englander,et al.  Hydrogen exchange methods to study protein folding. , 2004, Methods.

[87]  S. Berkowitz,et al.  Characterization of IgG1 conformation and conformational dynamics by hydrogen/deuterium exchange mass spectrometry. , 2009, Analytical chemistry.

[88]  H Baldascini,et al.  Rapid whole monoclonal antibody analysis by mass spectrometry: An Ultra scale‐down study of the effect of harvesting by centrifugation on the post‐translational modification profile , 2010, Biotechnology and bioengineering.

[89]  F. Veronese,et al.  The Impact of PEGylation on Biological Therapies , 2012, BioDrugs.

[90]  A. Baumann Early development of therapeutic biologics--pharmacokinetics. , 2006, Current drug metabolism.

[91]  S. A. McLuckey,et al.  Dissociations of disulfide-linked gaseous polypeptide/protein anions: ion chemistry with implications for protein identification and characterization. , 2002, Journal of proteome research.

[92]  F. Tse,et al.  A sensitive and high-throughput LC-MS/MS method for the quantification of pegylated-interferon-alpha2a in human serum using monolithic C18 solid phase extraction for enrichment. , 2009, Journal of chromatography. B, Analytical technologies in the biomedical and life sciences.

[93]  A. Lebedev,et al.  Direct identification of intramolecular disulfide links in peptides using negative ion electrospray mass spectra of underivatised peptides. A joint experimental and theoretical study. , 2005, Rapid communications in mass spectrometry : RCM.

[94]  Eric Ezan,et al.  Critical comparison of MS and immunoassays for the bioanalysis of therapeutic antibodies. , 2009, Bioanalysis.

[95]  D. Suckau,et al.  Toward top-down determination of PEGylation site using MALDI in-source decay MS analysis , 2009, Journal of the American Society for Mass Spectrometry.

[96]  I. Kaltashov,et al.  Electrospray ionization mass spectrometry of highly heterogeneous protein systems: protein ion charge state assignment via incomplete charge reduction. , 2010, Analytical chemistry.

[97]  D. Chelius,et al.  Structural and functional characterization of the trifunctional antibody catumaxomab , 2010, mAbs.

[98]  S. Berkowitz,et al.  The utility of hydrogen/deuterium exchange mass spectrometry in biopharmaceutical comparability studies. , 2011, Journal of pharmaceutical sciences.

[99]  R. Zubarev,et al.  Localization of O-glycosylation sites in peptides by electron capture dissociation in a Fourier transform mass spectrometer. , 1999, Analytical chemistry.