Time-Resolved Infrared Spectroscopy of pH-Induced Aggregation of the Alzheimer Aβ1-28 Peptide

Journal of Molecular Biology

Volumn 379, Issue 3, 2008, Pages 589-596

  Perálvarez Marín, Alex ^a   Barth, Andreas ^a   Gräslund, Astrid ^a  

^a STOCKHOLM UNIVERSITY   (Sweden)

Author keywords

Alzheimer's disease; amyloid; caged compounds; endosomal lysosomal acidification; FTIR spectroscopy

Indexed keywords

1 (2 NITROPHENYL)ETHYL SULFATE; ABETA 1 28 PEPTIDE; ALCOHOL; BRAIN PROTEIN; PROTON;

ALZHEIMER DISEASE; ARTICLE; BETA SHEET; CELL COMPARTMENTALIZATION; ENDOSOME; INFRARED SPECTROSCOPY; KINETICS; LYSOSOME; PH MEASUREMENT; PRIORITY JOURNAL; PROTEIN AGGREGATION; PROTEIN ANALYSIS; PROTEIN STRUCTURE;

EID: 43449118401     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jmb.2008.04.014     Document Type: Article

References (52)

1. C. Soto L. Estrada J. Castilla Amyloids, prions and the inherent infectious nature of misfolded protein aggregates Trends Biochem. Sci. 31 2006 150 155
2. J. Hardy D.J. Selkoe Medicine — The amyloid hypothesis of Alzheimer's disease: progress and problems on the road to therapeutics Science 297 2002 353 356
3. D.J. Selkoe Folding proteins in fatal ways Nature 426 2003 900 904
4. F. Chiti C.M. Dobson Protein misfolding, functional amyloid, and human disease Annu. Rev. Biochem. 75 2006 333 366
5. D.J. Selkoe Normal and abnormal biology of the beta-amyloid precursor protein Annu. Rev. Neurosci. 17 1994 489 517
6. S.H. Pasternak J.W. Callahan D.J. Mahuran The role of the endosomal/lysosomal system in amyloid-beta production and the pathophysiology of Alzheimer's disease: Reexamining the spatial paradox from a lysosomal perspective J. Alzheimers Dis. 6 2004 53 65
7. C. Glabe Intracellular mechanisms of amyloid accumulation and pathogenesis in Alzheimer's disease J. Mol. Neurosci. 17 2001 137 145
8. M.R. D'Andrea R.G. Nagele H.Y. Wang P.A. Peterson D.H.S. Lee Evidence that neurones accumulating amyloid can undergo lysis to form amyloid plaques in Alzheimer's disease Histopathology 38 2001 120 134
9. S.J. Wood B. Maleeff T. Hart R. Wetzel Physical, morphological and functional differences between pH 5.8 and 7.4 aggregates of the Alzheimer's amyloid peptide AP J. Mol. Biol. 256 1996 870 877
10. W.L. Klein G.A. Krafft C.E. Finch Targeting small A beta oligomers: the solution to an Alzheimer's disease conundrum? Trends Neurosci. 24 2001 219 224
11. D.A. Kirschner H. Inouye L.K. Duffy A. Sinclair M. Lind D.J. Selkoe Synthetic peptide homologous to beta-protein from Alzheimer-disease forms amyloid-like fibrils in vitro Proc. Natl Acad. Sci. USA 84 1987 6953 6957
12. K. Ma E.L. Clancy Y.B. Zhang D.G. Ray K. Wollenberg M.G. Zagorski Residue-specific pK(a) measurements of the beta-peptide and mechanism of pH-induced amyloid formation J. Am. Chem. Soc. 121 1999 8698 8706
13. P.E. Fraser D.R. Mclachlan W.K. Surewicz C.A. Mizzen A.D. Snow J.T. Nguyen D.A. Kirschner Conformation and fibrillogenesis of Alzheimer a-beta peptides with selected substitution of charged residues J. Mol. Biol. 244 1994 64 73
14. J. Danielsson R. Pierattelli L. Banci A. Graslund High-resolution NMR studies of the zinc-binding site of the Alzheimer's amyloid beta-peptide FEBS J. 274 2007 46 59
15. M. Cortijo-Arellano J. Ponce N. Durany J. Cladera Amyloidogenic properties of the prion protein fragment PrP(185–208): comparison with Alzheimer's peptide Abeta(1–28), influence of heparin and cell toxicity Biochem. Biophys. Res. Commun. 368 2008 238 242
16. S.M. Decatur Elucidation of residue-level structure and dynamics of polypeptides via isotopp-edited infrared spectroscopy Accts Chem. Res. 39 2006 169 175
17. M.R. Nilsson C.M. Dobson In vitro characterization of lactoferrin aggregation and amyloid formation Biochemistry 42 2003 375 382
18. A. Barth Infrared spectroscopy of proteins Biochim. Biophys. Acta 1767 2007 1073 1101
19. N. Benseny-Cases M. Cocera J. Cladera Conversion of non-fibrillar beta-sheet oligomers into amyloid fibrils in Alzheimer's disease amyloid peptide aggregation Biochem. Biophys. Res. Commun. 361 2007 916 921
20. S.A. Petty S.M. Decatur Experimental evidence for the reorganization of beta-strands within aggregates of the a beta(16–22) peptide J. Am. Chem. Soc. 127 2005 13488 13489
21. M.R. Nilsson Techniques to study amyloid fibril formation in vitro Methods 34 2004 151 160
22. K. Matsuzaki C. Horikiri Interactions of amyloid beta-peptide (1–40) with ganglioside-containing membranes Biochemistry 38 1999 4137 4142
23. A. Barth W. Kreutz W. Mantele Molecular changes in the sarcoplasmic reticulum calcium ATPase during catalytic activity. A Fourier transform infrared (FTIR) study using photolysis of caged ATP to trigger the reaction cycle FEBS Lett. 277 1990 147 150
24. V. Cepus C. Ulbrich C. Allin A. Troullier K. Gerwert Fourier transform infrared photolysis studies of caged compounds Methods Enzymol. 291 1998 223 245
25. A. Barth Analytical time-resolved studies using photochemical triggering methods M. Goeldner R. Givens Dynamic Studies in Biology: Phototriggers, Photoswitches and Caged bioMolecules 2005 Wiley-VCH Weinheim 369 399
26. A. Barth C. Zscherp Substrate binding and enzyme function investigated by infrared spectroscopy FEBS Lett. 477 2000 151 156
27. A. Barth J.E.T. Corrie Characterization of a new caged proton capable of inducing large pH jumps Biophys. J. 83 2002 2864 2871
28. S. Abbruzzetti S. Sottini C. Viappiani J.E.T. Corrie Kinetics of proton release after flash photolysis of 1-(2-nitrophenyl)ethyl sulfate (caged sulfate) in aqueous solution J. Am. Chem. Soc. 127 2005 9865 9874
29. L.K. Tamm S.A. Tatulian Infrared spectroscopy of proteins and peptides in lipid bilayers Quart. Rev. Biophys. 30 1997 365 429
30. A. Barth J.E.T. Corrie M.J. Gradwell Y. Maeda W. Mantele T. Meier D.R. Trentham Time-resolved infrared spectroscopy of intermediates and products from photolysis of 1-(2-nitrophenyl)ethyl phosphates: Reaction of the 2-nitrosoacetophenone by product with thiols J. Am. Chem. Soc. 119 1997 4149 4159
31. A. Barth W. Mantele W. Kreutz Infrared spectroscopic signals arising from ligand binding and conformational changes in the catalytic cycle of sarcoplasmic reticulum calcium ATPase Biochim. Biophys. Acta 1057 1991 115 123
32. N. Yamada K. Ariga M. Naito K. Matsubara E. Koyama Regulation of beta-sheet structures within amyloid-like beta-sheet assemblage from tripeptide derivatives J. Am. Chem. Soc. 120 1998 12192 12199
33. P. Chitnumsub W.R. Fiori H.A. Lashuel H. Diaz J.W. Kelly The nucleation of monomeric parallel beta-sheet-like structures and their self-assembly in aqueous solution Bioorg. Med. Chem. 7 1999 39 59
34. Y.N. Chirgadze N.A. Nevskaya Infrared-spectra and resonance interaction of amide-one vibration of parallel-chain pleated sheet Biopolymers 15 1976 627 636
35. J. Kubelka T.A. Keiderling Differentiation of beta-sheet-forming structures: ab initio-based simulations of IR absorption and vibrational CD for model peptide and protein beta-sheets J. Am. Chem. Soc. 123 2001 12048 12058
36. H. Torii T. Tatsumi M. Tasumi Effects of hydration on the structure, vibrational wavenumbers, vibrational force field and resonance Raman intensities of N-methylacetamide J. Raman Spectrosc. 29 1998 537 546
37. G. Zandomeneghi M.R.H. Krebs M.G. Mccammon M. Fandrich FTIR reveals structural differences between native beta-sheet proteins and amyloid fibrils Protein Sci. 13 2004 3314 3321
38. Y.N. Chirgadze N.A. Nevskaya Infrared-Spectra and resonance interaction of amide-one vibration of anti-parallel-chain pleated sheet Biopolymers 15 1976 607 625
39. J. Kubelka T.A. Keiderling The anomalous infrared amide I intensity distribution in C-13 isotopically labeled peptide beta-sheets comes from extended, multiple-stranded structures. An ab initio study J. Am. Chem. Soc. 123 2001 6142 6150
40. C. Lee M.H. Cho Local amide I mode frequencies and coupling constants in multiple-stranded antiparallel beta-sheet polypeptides J. Phys. Chem. B 108 2004 20397 20407
41. B. Kleffel R.M. Garavito W. Baumeister J.P. Rosenbusch Secondary structure of a channel-forming protein: porin from E. coli outer membranes EMBO J. 4 1985 1589 1592
42. A. Barth C. Zscherp What vibrations tell us about proteins Quart. Rev. Biophys. 35 2002 369 430
43. D.M. Byler H. Susi Examination of the secondary structure of proteins by deconvolved FTIR spectra Biopolymers 25 1986 469 487
44. N. Demirdoven C.M. Cheatum H.S. Chung M. Khalil J. Knoester A. Tokmakoff Two-dimensional infrared spectroscopy of antiparallel beta-sheet secondary structure J. Am. Chem. Soc. 126 2004 7981 7990
45. J. Kubelka T.A. Keiderling Ab initio calculation of amide carbonyl stretch vibrational frequencies in solution with modified basis sets. 1. N-Methyl acetamide J. Phys. Chem. A 105 2001 10922 10928
46. B. Mennucci J.M. Martinez How to model solvation of peptides? Insights from a quantum-mechanical and molecular dynamics study of N-methylacetamide. 1. Geometries, infrared, and ultraviolet spectra in water J. Phys. Chem. B 109 2005 9818 9829
47. H. Torii T. Tatsumi T. Kanazawa M. Tasumi Effects of intermolecular hydrogen-bonding interactions on the amide I mode of N-methylacetamide: matrix-isolation infrared studies and ab initio molecular orbital calculations J. Phys. Chem. B 102 1998 309 314
48. F.R. Salemme Structural-properties of protein beta-sheets Prog. Biophys. Mol. Biol. 42 1983 95 133
49. A.T. Petkova Y. Ishii J.J. Balbach O.N. Antzutkin R.D. Leapman F. Delaglio R. Tycko A structural model for Alzheimer's beta-amyloid fibrils based on experimental constraints from solid state NMR Proc. Natl Acad. Sci. USA 99 2002 16742 16747
50. T. Luhrs C. Ritter M. Adrian D. Riek-Loher B. Bohrmann H. Dobeli 3D structure of Alzheimer's amyloid-beta(1–42) fibrils Proc. Natl Acad. Sci. USA 102 2005 17342 17347
51. P.T. Lansbury P.R. Costa J.M. Griffiths E.J. Simon M. Auger K.J. Halverson Structural model for the beta-amyloid fibril based on interstrand alignment of an antiparallel-sheet comprising a C-terminal peptide Nature Struct. Biol. 2 1995 990 998
52. J.D. Harper P.T. Lansbury Models of amyloid seeding in Alzheimier's disease and scrapie: mechanistic truths and physiological consequences of the time-dependent solubility of amyloid proteins Annu. Rev. Biochem. 66 1997 385 407