Human recombinant [C22A] FK506-binding protein amide hydrogen exchange rates from mass spectrometry match and extend those from NMR

Protein Science

Volumn 6, Issue 10, 1997, Pages 2203-2217

  Zhang, Zhongqi ^a   Li, Weiqun ^a   Logan, Timothy M ^a   Li, Ming ^a   Marshall, Alan G ^a  

^a FLORIDA STATE UNIVERSITY   (United States)

Author keywords

Conformation; FK506 binding protein; FT ICR; Hydrogen exchange; Mass spectrometry; Maximum entropy method; NMR; Solvent accessibility

Indexed keywords

BINDING PROTEIN; TACROLIMUS;

ARTICLE; MASS SPECTROMETRY; MOLECULAR DYNAMICS; NUCLEAR MAGNETIC RESONANCE; PRIORITY JOURNAL; PROTEIN STRUCTURE; PROTON TRANSPORT;

EID: 0030801864     PISSN: 09618368     EISSN: None     Source Type: Journal    
DOI: 10.1002/pro.5560061015     Document Type: Article

References (51)

1. Afeyan NB, Fulton SP, Gordon NF, Mazsaroff I, Varady L, Regnier FE. 1990a. Perfusion chromatography: An approach to purifying biomolecules. Bio/ Technology 8:203-206.
2. Afeyan NB, Fulton SP, Regnier FE. 1991. Perfusion chromatography packing materials for proteins and peptides. J Chromatogr 544:267-279.
3. Afeyan NB, Gordon NF, Mazsaroff I, Varady L, Fulton SP, Yang YB, Regnier FE. 1990b. Flow-through particles for the high-performance liquid chromatographic separation of biomolecules: Perfusion chromatography. J Chromatogr 519:1-29.
4. Bai Y, Milne JS, Mayne L, Englander SW. 1993. Primary structure effects on peptide group hydrogen exchange. Proteins Struct Funct Genet 17:75-86.
5. Barettino D, Feigenbutz M, Valcarcel R, Stunnenberg HG. 1994. Improved method for PCR-mediated site-directed mutagenesis. Nucleic Acids Res 22:541-542.
6. Buchanan MV, Hettich RL. 1993. Characterization of large biomolecules by Fourier transform mass spectrometry. Anal Chem 65:245A-259A.
7. Comisarow MB, Marshall AG. 1974. Fourier transform ion cyclotron resonance spectroscopy. Chem Phys Lett 25:282-283.
8. Delaglio F, Grzesiek S, Vuister GW, Zhu G, Pfeifer J, Bax A. 1995. NMRPipe: A multidimensional spectra processing system based on UNIX pipes. J Biomol NMR 6:277-293.
9. Dharmasiri K, Smith DL. 1996. Mass spectrometric determination of isotopic exchange rates of amide hydrogens located on the surfaces of proteins. Anal Chem 68:2340-2344.
10. Englander JJ, Rogero JR, Englander SW. 1985. Protein hydrogen exchange studied by the fragment separation method. Anal Biochem 147:234-244.
11. Englander SW, Englander JJ, McKinnie RE, Ackers GK, Turner GJ, Westrick JA, Gill SJ. 1992. Hydrogen exchange measurement of the free energy of structural and allosteric change in hemoglobin. Science 256:1684-1687.
12. Englander SW, Kallenbach NR. 1984. Hydrogen exchange and structural dynamics of proteins and nucleic acids. Quart Rev Biophys 16:521-655.
13. Englander SW, Sosnick TR, Englander JJ, Mayne L. 1996. Mechanisms and uses of hydrogen exchange. Curr Opin Struct Biol 6:18-23.
14. Fruman DA, Burakoff SJ, Beirer BE. 1994. Immunophilins in protein folding and immunosuppression. FASEB J 8:391-400.
15. Gregory RB. 1983. Comparison of analytically and numerically derived hydrogen exchange-rate distribution functions. Biopolymers 22:895-909.
16. Gregory RB, Rosenberg A. 1986. Protein conformational dynamics measured by hydrogen isotopic exchange techniques. Methods Enzymol 31:448-508.
17. Guan S, Marshall AG. 1996. Stored waveform inverse Fourier transform (SWIFT) ion excitation in trapped-ion mass spectrometry: Theory and applications. Int J Mass Spectrom Ion Processes 157/158:5-37.
18. Holzman TL, Egan DA, Edalji R, Simmer RL, Helfrich R, Taylor A, Burres NS. 1991. Preliminary characterization of a cloned neutral isoelectric form of the human peptidyl prolyl isomerase cyclophilin. J Biol Chem 226:2474-2479.
19. Johnson BA, Blevins RA. 1994. NMRView: A computer program for the visualization and analysis of NMR data. J Biomol NMR 4:603-614.
20. Johnson RS. 1996. Mass spectrometric measurement of changes in protein hydrogen exchange rates that result from point mutations. J Am Soc Mass Spectrom 7:515-521.
21. Johnson RS, Walsh KA. 1994. Mass spectrometric measurement of protein amide hydrogen exchange rates of apo-and holo-myoglobin. Protein Sci 3:2411-2418.
22. Knox DG, Rosenberg M. 1980. Fluctuations of protein structure as expressed in the distribution of hydrogen exchange rate constants. Biopolymers 19:1049-1068.
23. Little DP, Speir JP, Senko MW, O'Cornnor PB, McLafferty FW. 1994. Infrared multiphoton dissociation of large multiply-charged ions for biomolecule sequencing. Anal Chem 66:2809-2815.
24. Liu Y, Smith DL. 1994. Probing high order structure of proteins by fast-atom bombardment mass spectrometry. J Am Soc Mass Spectrom 5:19-28.
25. Marion D, Ikura M, Tschudin R, Bax A. 1989. Rapid recording of 2D NMR spectra without phase cycling. Application to the study of hydrogen exchange in proteins. J Magn Reson 85:393-399.
26. Marshall AG, Comisarow MB, Parisod G. 1979. Relaxation and spectral line shape in Fourier transform ion cyclotron resonance spectroscopy. J Chem Phys 71:4434-4444.
27. Marshall AG, Schweikhard L. 1992. FT/ICR/MS: Technique developments. Int J Mass Spectrom Ion Processes 118/119:37-70.
28. 15N double-depletion and FT-ICR mass spectrometry. J Am Chem Soc 119:433-434.
29. Marshall AG, Wang T-CL, Ricca TL. 1985. Tailored excitation for Fourier transform ion cyclotron resonance mass spectrometry. J Am Chem Soc 107:7893-7897.
30. McLafferty FW. 1994. High-resolution tandem FT mass spectrometry above 10 kDa. Acc Chem Res 27:379-386.
31. Miranker A, Robinson CV, Radford SE, Aplin RT, Dobson CM. 1993. Detection of transient protein folding populations by mass spectrometry. Science 262:896-900.
32. Muhandiram R, Kay LE. 1994. Gradient-enhanced triple-resonance three-dimensional NMR experiments with improved sensitivity. J Magn Reson 103B:203-216.
33. Park ST, Aldape RA, Futer O, DeCenzo MT Livingston DJ. 1992. PPIase catalysis by human FT506-binding protein proceeds through a conformational twist mechanism. J Biol Chem 267:3316-3324.
34. Pilot-Mathias T, Pratt SD, Lane BC. 1993. High-level synthesis of the 12-kDa Human FK506-binding protein in Escherichia coli using translational coupling. Gene 128:219-225.
35. Powers JC, Harley AD, Myers DV. 1977. Substrate specificity of porcine pepsin. Adv Exp Med Biol 95:141-57.
36. Press WH, Teukolsky SA, Vetterling WT, Flannery BP. 1992. Numerical recipes in C. The art of scientific computing, 2nd ed. Cambridge, England: Cambridge University Press.
37. Rosa JJ, Richards FM. 1979. An experimental procedure for increasing the structural resolution of chemical hydrogen-exchange measurements on proteins: Application to ribonuclease S peptide. J Mol Biol 133:399-416.
38. Senko MW, Hendrickson CL, Pasa-Tolic L, Marto JA, White FM, Guan S, Marshall AG. 1996. Electrospray ionization FT-ICR mass spectrometry at 9.4 Tesla. Rapid Commun Mass Spectrom 10:1824-1828.
39. Skilling J, Bryan RK. 1984. Maximum entropy image reconstruction general algorithm. Mon Not R Astr Soc 211:111-124.
40. Smith DL, Deng Y, Zhang Z. 1997. Probing the noncovalent structure of proteins by amide hydrogen exchange and mass spectrometry. J Mass Spectrom 32:135-146.
41. Smith DL, Zhang Z. 1994. Probing noncovalent structural features of proteins by mass spectrometry. Mass Spectrom Rev 13:411-429.
42. Speir JP, Gorman GS, Amster IJ. 1992. Laser desorption, chemical ionization, and laser desorption/chemical ionization applications with FTMS. In: Gross ML. ed. Mass spectrometry in the biological sciences: A tutorial. Dordrecht, The Netherlands: Kluwer Academic Publishers. pp 199-212.
43. 1H HSQC spectra of proteins. J Magn Reson 107A:178-184.
44. van Duyne GD, Standaert RF, Karplus PA, Schreiber SL, Clardy J. 1991. Atomic Structure of FKBP-FK506, an Immunophilin-Immunosuppressant Complex. Science 252:839-842.
45. Wilkins CL. 1994. Fourier transform mass spectrometry. Trends Anal Chem 13 (Special issue):223-251.
46. Woodward C, Simon I, Tuchsen E. 1982. Hydrogen exchange and the dynamic structure of proteins. Mol Cell Biochem 40:135-60.
47. Wu Q, Van Orden S, Cheng X, Bakhtiar R, Smith RD. 1995. Characterization of cytochrome c variants with high-resolution FTICR mass spectrometry: Correlation of fragmentation and structure. Anal Chem 67:2498-2509.
48. Zhang Z, Guan S, Marshall AG. 1997. Enhancement of the effective resolution of mass spectra of high-mass biomolecules by maximum-entropy based deconvolution to eliminate the isotopic natural abundance distribution. J Am Soc Mass Spectrom 8:659-670.
49. Zhang Z, Post CB, Smith DL. 1996. Amide hydrogen exchange determined by mass spectrometry: Application to rabbit muscle aldolase. Biochemistry 35:779-791.
50. Zhang Z, Smith DL. 1993. Determination of amide hydrogen exchange by mass spectrometry: A new tool for protein structure elucidation. Protein Sci 2:522-531.
51. Zhang Z, Smith DL. 1996. Detection of thermal-induced unfolding domains in aldolase by amide hydrogen exchange and mass spectrometry. Protein Sci 5:1282-1289.