Hydrogen exchange: The modern legacy of Linderstrøm‐Lang

This discussion, prepared for the Protein Society's symposium honoring the 100th anniversary of Kaj Linderstrøm‐Lang, shows how hydrogen exchange approaches initially conceived and implemented by Lang and his colleagues some 50 years ago are contributing to current progress in structural biology. Examples are chosen from the active protein folding field. Hydrogen exchange methods now make it possible to define the structure of protein folding intermediates in various contexts: as tenuous molten globule forms at equilibrium under destabilizing conditions, in kinetic intermediates that exist for less than one second, and as infinitesimally populated excited state forms under native conditions. More generally, similar methods now find broad application in studies of protein structure, energetics, and interactions. This article considers the rise of these capabilities from their inception at the Carlsberg Labs to their contemporary role as a significant tool of modern structural biology.

[1]  A. Berger,et al.  Deuterium exchange of poly-DL-alanine in aqueous solution. , 1957, Archives of biochemistry and biophysics.

[2]  C M Dobson,et al.  Characterization of a partly folded protein by NMR methods: studies on the molten globule state of guinea pig alpha-lactalbumin. , 1989, Biochemistry.

[3]  D. Gorenstein,et al.  Structure of glucagon-like peptide (7-36) amide in a dodecylphosphocholine micelle as determined by 2D NMR. , 1994, Biochemistry.

[4]  A. Fersht,et al.  Relationship between equilibrium amide proton exchange behavior and the folding pathway of barnase. , 1995, Biochemistry.

[5]  M. Guéron,et al.  Studies of base pair kinetics by NMR measurement of proton exchange. , 1995, Methods in enzymology.

[6]  K. Wüthrich NMR of proteins and nucleic acids , 1988 .

[7]  Robert L. Baldwin,et al.  NMR evidence for an early framework intermediate on the folding pathway of ribonuclease A , 1988, Nature.

[8]  K. Wüthrich,et al.  Destabilization of the complete protein secondary structure on binding to the chaperone GroEL , 1994, Nature.

[9]  A. Rosenberg,et al.  Acquisition and interpretation of hydrogen exchange data from peptides, polymers, and proteins. , 2006, Methods of biochemical analysis.

[10]  S. Walter Englander,et al.  Structural characterization of folding intermediates in cytochrome c by H-exchange labelling and proton NMR , 1988, Nature.

[11]  A. D. Robertson,et al.  Temperature and pH dependences of hydrogen exchange and global stability for ovomucoid third domain. , 1996, Biochemistry.

[12]  Y. Kuroda,et al.  Residual helical structure in the C-terminal fragment of cytochrome c. , 1993, Biochemistry.

[13]  H. Roder,et al.  A noncovalent peptide complex as a model for an early folding intermediate of cytochrome c. , 1993, Biochemistry.

[14]  Tracy M. Handel,et al.  Detection of rare partially folded molecules in equilibrium with the native conformation of RNaseH , 1996, Nature Structural Biology.

[15]  K. Kuwajima,et al.  The chaperonin GroEL does not recognize apo-α-lactalbumin in the molten globule state , 1994, Nature Structural Biology.

[16]  R. Anderegg,et al.  MASS SPECTROMETRIC CHARACTERIZATION OF A PROTEIN-LIGAND INTERACTION , 1995 .

[17]  S. L. Mayo,et al.  Protein hydrogen exchange in denaturant: quantitative analysis by a two-process model. , 1994, Biochemistry.

[18]  G. Bodenhausen,et al.  Principles of nuclear magnetic resonance in one and two dimensions , 1987 .

[19]  J. J. Rosa,et al.  An experimental procedure for increasing the structural resolution of chemical hydrogen-exchange measurements on proteins: application to ribonuclease S peptide. , 1979, Journal of molecular biology.

[20]  J. Markley,et al.  Hydrogen exchange in unligated and ligated staphylococcal nuclease. , 1993, Biochemistry.

[21]  A. Fink Compact intermediate states in protein folding. , 1995, Annual review of biophysics and biomolecular structure.

[22]  J M Scholtz,et al.  Hydrogen exchange techniques. , 1995, Methods in molecular biology.

[23]  A. Fersht,et al.  Identification of the barstar binding site of barnase by NMR spectroscopy and hydrogen‐deuterium exchange , 1993, FEBS letters.

[24]  S. Englander,et al.  Measurement of protein structure change in active muscle by hydrogen-tritium exchange. , 1996, Biophysical chemistry.

[25]  L Mayne,et al.  Mechanisms and uses of hydrogen exchange. , 1996, Current opinion in structural biology.

[26]  K. Wüthrich,et al.  Amide protein exchange and surface conformation of the basic pancreatic trypsin inhibitor in solution. Studies with two-dimensional nuclear magnetic resonance. , 1982, Journal of molecular biology.

[27]  R. L. Baldwin Pulsed H/D-exchange studies of folding intermediates , 1993 .

[28]  A. Hvidt,et al.  3 – DEUTERIUM AND 18O EXCHANGE , 1960 .

[29]  C. Pace Determination and analysis of urea and guanidine hydrochloride denaturation curves. , 1986, Methods in enzymology.

[30]  K. Kuwajima,et al.  The molten globule state as a clue for understanding the folding and cooperativity of globular‐protein structure , 1989, Proteins.

[31]  S W Englander,et al.  Structural description of acid-denatured cytochrome c by hydrogen exchange and 2D NMR. , 1990, Biochemistry.

[32]  S. Englander,et al.  Hydrogen-tritium exchange. , 1972, Methods in enzymology.

[33]  Protein internal flexibility and global stability: effect of urea on hydrogen exchange rates of bovine pancreatic trypsin inhibitor. , 1993, Biochemistry.

[34]  O. Ptitsyn,et al.  Evidence for a molten globule state as a general intermediate in protein folding , 1990, FEBS letters.

[35]  C. Post,et al.  Amide hydrogen exchange determined by mass spectrometry: application to rabbit muscle aldolase. , 1996, Biochemistry.

[36]  D. Gorenstein,et al.  Structure and dynamics of cytochrome c in nonaqueous solvents by 2D NH-exchange NMR spectroscopy , 1993 .

[37]  T. Sosnick,et al.  Protein folding intermediates: native-state hydrogen exchange. , 1995, Science.

[38]  N. Kallenbach,et al.  Hydrogen exchange and structural dynamics of proteins and nucleic acids , 1983, Quarterly Reviews of Biophysics.

[39]  P. S. Kim,et al.  Specific intermediates in the folding reactions of small proteins and the mechanism of protein folding. , 1982, Annual review of biochemistry.

[40]  W. P. Bryan The Mechanism of Hydrogen Exchange in Proteins , 1970 .

[41]  A. Hvidt,et al.  Hydrogen exchange in proteins. , 1966, Advances in protein chemistry.

[42]  J. Schellman A simple model for solvation in mixed solvents. Applications to the stabilization and destabilization of macromolecular structures. , 1990, Biophysical chemistry.

[43]  S. L. Mayo,et al.  Guanidinium chloride induction of partial unfolding in amide proton exchange in RNase A. , 1993, Science.

[44]  K. Wüthrich,et al.  Structural interpretation of the amide proton exchange in the basic pancreatic trypsin inhibitor and related proteins. , 1979, Journal of molecular biology.

[45]  Matthews Cr PATHWAYS OF PROTEIN FOLDING , 1993 .

[46]  O. Ptitsyn,et al.  Molten globule and protein folding. , 1995, Advances in protein chemistry.

[47]  J. R. Rogero,et al.  Protein hydrogen exchange studied by the fragment separation method. , 1985, Analytical biochemistry.

[48]  S W Englander,et al.  Future directions in folding: The multi‐state nature of protein structure , 1996, Proteins.

[49]  Ad Bax,et al.  Multidimensional nuclear magnetic resonance methods for protein studies , 1994 .

[50]  J. Schellman Selective binding and solvent denaturation , 1987, Biopolymers.

[51]  K. Linderstrøm-Lang,et al.  The pH-dependence of the deuterium exchange of insulin. , 1955, Biochimica et biophysica acta.

[52]  O. Ptitsyn Kinetic and equilibrium intermediates in protein folding. , 1994, Protein engineering.

[53]  C. Tanford Protein denaturation. , 1968, Advances in protein chemistry.

[54]  F. Richards Packing defects, cavities, volume fluctuations, and access to the interior of proteins. Including some general comments on surface area and protein structure , 1979 .

[55]  C. Woodward,et al.  Comparison of hydrogen exchange rates for bovine pancreatic trypsin inhibitor in crystals and in solution. , 1992, Biochemistry.

[56]  Yawen Bai,et al.  [15] Thermodynamic parameters from hydrogen exchange measurements , 1995 .

[57]  F M Poulsen,et al.  A nuclear magnetic resonance study of the hydrogen-exchange behaviour of lysozyme in crystals and solution. , 1991, Journal of molecular biology.

[58]  H. Roder,et al.  An antibody binding site on cytochrome c defined by hydrogen exchange and two-dimensional NMR. , 1990, Science.

[59]  C. Dobson,et al.  Investigation of protein folding by mass spectrometry , 1996, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.

[60]  P. Alexander,et al.  Hydrogen-deuterium exchange in the free and immunoglobulin G-bound protein G B-domain. , 1994, Biochemistry.

[61]  Clare Woodward,et al.  Hydrogen exchange rates and protein folding , 1994 .

[62]  A. Klibanov,et al.  Protein Structure in the Lyophilized State: A Hydrogen Isotope Exchange/NMR Study with Bovine Pancreatic Trypsin Inhibitor , 1994 .

[63]  J G Pelton,et al.  Structure of the acid state of Escherichia coli ribonuclease HI. , 1996, Biochemistry.

[64]  C M Dobson,et al.  Structure and stability of the molten globule state of guinea-pig alpha-lactalbumin: a hydrogen exchange study. , 1993, Biochemistry.

[65]  L. Mayne,et al.  Effect of antibody binding on protein motions studied by hydrogen-exchange labeling and two-dimensional NMR. , 1992, Biochemistry.

[66]  A. R. Tammar,et al.  Protein Structure and Enzyme Activity , 1985 .

[67]  A HVIDT,et al.  Exchange of hydrogen atoms in insulin with deuterium atoms in aqueous solutions. , 1954, Biochimica et biophysica acta.

[68]  D. Wemmer,et al.  Identification of a protein-binding surface by differential amide hydrogen-exchange measurements. Application to Bowman-Birk serine-protease inhibitor. , 1992, Journal of molecular biology.

[69]  Yawen Bai,et al.  Protein stability parameters measured by hydrogen exchange , 1994, Proteins.

[70]  J. R. Rogero,et al.  Individual breathing reactions measured by functional labeling and hydrogen exchange methods. , 1986, Methods in enzymology.

[71]  A. Kossiakoff Protein dynamics investigated by the neutron diffraction–hydrogen exchange technique , 1982, Nature.

[72]  L Mayne,et al.  Protein folding studied using hydrogen-exchange labeling and two-dimensional NMR. , 1992, Annual review of biophysics and biomolecular structure.

[73]  S. Kidokoro,et al.  Thermodynamic characterization of cytochrome c at low pH. Observation of the molten globule state and of the cold denaturation process. , 1992, Journal of molecular biology.

[74]  P E Wright,et al.  Structural characterization of a partly folded apomyoglobin intermediate. , 1990, Science.

[75]  C. Dobson,et al.  Conformation of GroEL-bound α-lactalbumin probed by mass spectrometry , 1994, Nature.

[76]  S. Marqusee,et al.  The kinetic folding intermediate of ribonuclease H resembles the acid molten globule and partially unfolded molecules detected under native conditions , 1997, Nature Structural Biology.

[77]  P E Wright,et al.  Formation of a molten globule intermediate early in the kinetic folding pathway of apomyoglobin. , 1993, Science.

[78]  A. Hvidt Deuterium exchange between ribonuclease and water. , 1955, Biochimica et biophysica acta.

[79]  O. Ptitsyn Structures of folding intermediates. , 1995, Current opinion in structural biology.

[80]  E. Benson,et al.  Deuterium exchange between myoglobin and water. , 1959, Biochimica et biophysica acta.