Two-dimensional mass spectrometry of biomolecules at the subfemtomole level

Current Opinion in Chemical Biology

Volumn 2, Issue 5, 1998, Pages 571-578

  McLafferty, Fred W ^a   Kelleher, Neil L ^a   Begley, Tadhg P ^a   Fridriksson, Einar K ^a   Zubarev, Roman A ^a   Horn, David M ^a  

^a Department of Obstetrics Gynecology   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CARBONATE DEHYDRATASE; CYTOCHROME C; DNA; THIAMIN PYRIDINYLASE; THIAMINE; TRANSFERASE; UBIQUITIN;

ANIMAL; CATTLE; CHEMISTRY; FOURIER ANALYSIS; HORSE; INSTRUMENTATION; MAJOR HISTOCOMPATIBILITY COMPLEX; MASS FRAGMENTOGRAPHY; MASS SPECTROMETRY; METHODOLOGY; MOLECULAR WEIGHT; NUCLEOTIDE SEQUENCE; PROTEIN CONFORMATION; REVIEW;

ALKYL AND ARYL TRANSFERASES; ANIMALS; BASE SEQUENCE; CARBONIC ANHYDRASES; CATTLE; CYTOCHROME C GROUP; DNA; FOURIER ANALYSIS; GAS CHROMATOGRAPHY-MASS SPECTROMETRY; HORSES; MAJOR HISTOCOMPATIBILITY COMPLEX; MOLECULAR WEIGHT; PROTEIN CONFORMATION; SPECTROMETRY, MASS, MATRIX-ASSISTED LASER DESORPTION-IONIZATION; THIAMINE; UBIQUITINS;

EID: 0032176802     PISSN: 13675931     EISSN: None     Source Type: Journal    
DOI: 10.1016/S1367-5931(98)80085-9     Document Type: Article

References (46)

1. McLafferty FW (Ed): Tandem mass spectrometry. New York: Wiley & Sons Inc; 1983.
2. Wipf H-K, Irving P, McCamish M, Venkataraghavan R, McLafferty FW: Mass spectrometric studies of peptides. V. Determination of amino acid sequences in peptide mixtures by tandem mass spectrometry. J Am Chem Soc 1973, 95:3369.
3. Biemann K, Papayannopoulos IA: Mass spectrometry sequencing of proteins. Accounts Chem Res 1994, 27:370-378.
4. McLafferty FW: High-resolution tandem FT mass spectrometry above 10 kDa. Accounts Chem Res 1994, 27:379-386.
5. Valaskovic GA, Kelleher NL, McLafferty FW: Attomole protein characterization by capillary electrophoresis/mass spectrometry. Science 1996, 273:1199-1202.
6. Hillenkamp F, Karas M, Beavis RC, Chait BT: Matrix-assisted laser desorption/ionization mass spectrometry of biopolymers. Anal Chem 1991, 63:1193A-1203A.
7. Fenn JB, Mann M, Meng CK, Wong SF: Electrospray ionization -principles and practice. Mass Spectr Rev 1990, 9:37-70.
8. Wilm M, Neubauer G, Mann M: Parent ion scans of unseparated peptide mixtures. Anal Chem 1996, 68:527-533.
9. Qin J, Fenyo D, Zhau Y, Hall WW, Chao DM, Wilson CJ, Young RA, Chait BT: A strategy for rapid, high-confidence protein identification. Anal Chem 1997, 69:3995-4001. On-gel trypsin digestion of sodium dodecyl sulfate protein bands analyzed by matrix-assisted laser desorption/ionization tandem ion trap mass spectrometry provides peptide molecular weight and fragment mass values used for genome database searching to identify 5-10 proteins/day.
10. Blackburn R, Anderegg RJ: Characterization of femtomole levels of proteins in solution using rapid proteolysis and nanoelectrospray ionization mass spectrometry. J Am Soc Mass Spectr 1997, 8:483-494.
11. Yates JR III: Mass spectrometry and the age of the proteome. J Mass Spectr 1998, 33:1-19. A current review on mass spectrometric methods for the direct identfication of proteins in mixtures using a combination of enzymatic proteolysis, liquid chromatographic separation, tandem mass spectrometry, and computer searching of protein databases.
12. Henry KD, Williams ER, Wang B-H, McLafferty FW, Shabanowitz J, Hunt DF: Fourier-transform mass spectrometry of large biomolecules by electrospray ionization. Proc Natl Acad Sci USA 1989, 86:9075-9078.
13. Feng R, Konishi Y, Bell AW: High accuracy molecular weight determination and variation characterization of proteins up to 80 kDa by ionspray mass spectrometry. J Am Soc Mass Spectr 1991, 2:387-401.
14. Loo JA, Edmonds CG, Smith RD: Tandem mass spectrometry of very large molecules: serum albumin sequence information from multiply charged ions formed by electrospray ionization. Anal Chem 1991, 63:2488-2499.
15. Kelleher NL, Costello CA, Begley TP, McLafferty, FW: Thiaminase I (42 kDa) heterogeneity, sequence refinement, and active site location from high-resolution tandem mass spectrometry. J Am Soc Mass Spectr 1995, 6:981-984.
16. Kelleher NL, Senko MW, Siegel MW, McLafferty FW: Unit resolution mass spectra of 112 kDa molecules with 3 Da accuracy. J Am Soc Mass Spectr 1997, 8:380-383. Record molecular weight determination at unit resolution using the high magnetic field Fourier-transform spectrometry at the United States National Magnet Laboratory.
17. Kelleher NL, Nicewonger RB, Begley TP, McLafferty FW: Identification of modification sites in large molecules by stable isotope labeling and tandem high-resolution mass spectrometry. The active site nucleophile of thiaminase I. J Biol Chem 1997, 272:32215-32220. An enzyme active site is pinpointed (one amino acid in 379) with isotopic labeling and mass spectrometry.
18. Wood TD, Guan Z, Borders Jr CL, Chen LC, Kenyon GL, McLafferty FW: Creatine kinase: essential arginine residues at the nucleotide binding site identified by affinity labeling and high-resolution tandem mass spectrometry. Proc Natl Acad Sci USA 1998, 95:3362-3365. The 1:1 stoichiometry from reacting phenylglyoxal with creatine kinase indicated that only one of its 18 arginine residues is at the active site, but mass spectrometry showed partial derivatization at three specific sites.
19. Kelleher NL, Taylor SV, Grannis D, Kinsland C, Chiu H-J Begley TP, McLafferty FW: Efficient sequence analysis of the six gene products (7-74 kDa) from the E. coli thiamine biosynthetic operon by tandem high-resolution mass spectrometry. Protein Sci 1998, 7:1-6. For six enzymes, tandem mass spectrometry showed that only two of the predicted DNA sequences are correct.
20. McLuckey SA, Habibi-Goudarzi S: Decompositions of multiply charged oligonucleotide anions. J Am Chem Soc 1993, 115:12085-12095.
21. Limbach PA, Crain PF, McCloskey JA: Molecular mass measurement of intact ribonucleic acids via electrospray ionization quadrupole mass spectrometry. J Am Soc Mass Spectr 1995, 6:27-39.
22. Little DP, Aaserud DJ, Valaskovic GA, McLafferty FW: Efficient sequence information from femtomoles of 42-108-mer DNAs by tandem mass spectrometry. J Am Chem Soc 1996, 118:9352-9359.
23. McLafferty FW, Aaserud DJ, Guan Z, Little DP, Kelleher NL: Double stranded DNA sequencing by tandem mass spectrometry. Int J Mass Spectr Ion Processes 1997, 165/166:457-466.
24. Solouki T, Reinhold BB, Costello CE, O'Malley M, Guan S, Marshall AG: Electrospray ionization and matrix-assisted laser desorption/ionization Fourier transform ion cyclotron resonance mass spectrometry of permethylated oligosaccharides. Anal Chem 1998, 70:857-864.
25. Comisarow MB, Marshall AG: Fourier-transform ion cyclotron resonance spectroscopy. Chem Phys Lett 1974, 25:282.
26. Beu SC, Senko MW, Quinn JP, Wampler FM III, McLafferty FW: Fourier-transform electrospray instrumentation for tandem high-resolution mass spectrometry of large molecules. J Am Soc Mass Spectrom 1993, 4:557-565.
27. Williams ER: Tandem FTMS of large biomolecules. Anal Chem 1998, 70:79A-185A. This is an excellent up-to-date review of the field.
28. Jensen ON, Podtelejnikov AV, Mann M: Identification of the components of simple protein mixtures by high-accuracy peptide mass mapping and data base searching. Anal Chem 1997, 69:4741-4750. An authoritative description of mass spectral protein identifications from one of the most active of the world's laboratories.
29. Senko MW, Beu SC, McLafferty FW: Determination of monoisotopic masses and ion populations for large biomolecules from resolved isotopic distributions. J Am Soc Mass Spectrom 1995, 6:229-233.
30. McLafferty FW, Guan Z, Haupts U, Wood TD, Kelleher NL: Gaseous conformers of cytochrome c. J Am Chem Soc 1998, 120:4732-4740. Removal of water appears to make possible many more, and different, conformations of this protein.
31. Loo JA, Udseth HR, Smith RD: Collisional effects on the charge distribution of ions from large molecules, formed by electrosprayionization mass spectrometry. Rapid Commun Mass Spectr 1988, 2:207-210.
32. Gauthier JW, Trautman TR, Jacobsen DB: Sustained off-resonance irradiation for collision-activated dissociation involving Fouriertransform mass spectrometry. Anal Chim Acta 1991, 246:211.
33. Senko MW, Speir JP, McLafferty FW: Collisional activation of large multiply charged ions using Fourier-transform mass spectrometry. Anal Chem 1994, 66:2801-2808.
34. Little DP, Speir JP, Senko MW, O'Connor PB, McLafferty FW: Infrared multiphoton dissociation of large multiply charged ions for biomolecule sequencing. Anal Chem 1994, 66:2809-2815.
35. O'Connor PB, Speir JP, Senko MW, Little DP, McLafferty FW: Tandem mass spectrometry of carbonic anhydrase (29 kDa). J Mass Spectrom 1995, 30:88-93.
36. Hunt DF, Henderson RA, Shabanowitz J, Sakaguchi K, Michel H, Sevilir N, Cox AL, Appella E, Engelhard VH: Characterization of peptides bound to class I MHC molecule HLA-A2.1 by mass spectrometry. Science 1992, 255:1261.
37. Settlage RE, Russo PS, Shabanowitz J, Hunt DF: A novel μ-ESI source for coupling capillary electrophoresis and mass spectrometry: sequence determination of tumor peptides at the attomole level. J Microcolumn Sep 1998, 10:281-285. Capillary electrophoresis with ion trap mass spectrometry achieves detection limits of < 50 amol in full scan mass spectrometry (MS) and MS/MS to identify the antigen peptide among the thousands in a tumor cell extract.
38. Taylor SV, Kelleher NL, Kinsland CL, Chiu H-J, Costello CA, Backstrom AD, McLafferty FW, Begley TP: Thiamin biosynthesis in Escherichia coli: identification of ThiS thiocarboxylate as the immediate sulfur donor in the thiazole formation. J Biol Chem 1998, 273:16555.
39. Zubarev RA, Kelleher NL, McLafferty FW: Electron capture dissociation of multiply charged protein cations. J Am Chem Soc 1998, 120:3265-3266.
40. Loo JA: Studying noncovalent protein complexes by electrospray ionization mass spectrometry. Mass Spectr Rev 1997, 16:1-23.
41. Ganem B, Li Y-T, Henion JD: Detection of noncovalent receptorligand complexes by mass spectrometry. J Am Chem Soc 1991, 113:6294-6296.
42. Shelimov KB, Clemmer DE, Hudgins RR, Jarrold MF: Protein structure in vacuo: gas-phase conformations of BPTI and cytochrome c. J Am Chem Soc 1997, 119:2240-2248.
43. Wolynes PG: Biomolecular folding in vacuo. Proc Natl Acad Sci USA 1995, 92:2426-2427.
44. Cheng X, Chen R, Bruce JE, Schwartz BL, Anderson GA, Hofstadler SA, Gale DC, Smith RD, Gao J, Sigal GB, Mammen M, Whitesides GM: Using electrospray ionization FTICR mass spectrometry to study competitive binding of inhibitors to carbonic anhydrase. J Am Chem Soc 1995, 117:8859-8860.
45. Groves P, Searle MS, Westwell MS, Williams DH: Expression of electrostatic binding cooperativity in the recognition of cell wall peptide analogues by vancomycin group antibiotics. J Chem Soc Chem Commun 1994:1519-1520.
46. Li Y-T, Hsieh Y-L, Henion JD, Senko MW, McLafferty FW, Ganem B: Mass spectrometric studies on noncovalent dimers of leucine zipper peptides. J Am Chem Soc 1993, 115:8409-8413.