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Title: Identifying Cu( ii )–amyloid peptide binding intermediates in the early stages of aggregation by resonance Raman spectroscopy: a simulation study

Journal Article · · Physical Chemistry Chemical Physics. PCCP
DOI:https://doi.org/10.1039/c7cp06206k· OSTI ID:1425653
ORCiD logo [1];  [2];  [3]; ORCiD logo [4];  [1]; ORCiD logo [1];  [1]
  1. China Univ. of Petroleum (East China), Qingdao (China). State Key Lab. of Heavy Oil Processing, Center for Bioengineering & Biotechnology
  2. Univ. of California, Irvine, CA (United States). Dept. of Chemistry
  3. China Univ. of Petroleum (East China), Qingdao (China). Dept. of Chemistry, College of Science
  4. Shandong Univ., Jinan (China). State Key Lab. of Crystal Materials

The aggregation of amyloid beta (Aβ) peptides plays a crucial role in the pathology and etiology of Alzheimer's disease. Experimental evidence shows that copper ion is an aggregation-prone species with the ability to coordinately bind to Aβ and further induce the formation of neurotoxic Aβ oligomers. However, the detailed structures of Cu(II)–Aβ complexes have not been illustrated, and the kinetics and dynamics of the Cu(II) binding are not well understood. Two Cu(II)–Aβ complexes have been proposed to exist under physiological conditions, and another two might exist at higher pH values. By using ab initio simulations for the spontaneous resonance Raman and time domain stimulated resonance Raman spectroscopy signals, we obtained the characteristic Raman vibronic features of each complex. Finally, these signals contain rich structural information with high temporal resolution, enabling the characterization of transient states during the fast Cu–Aβ binding and interconversion processes.

Research Organization:
SLAC National Accelerator Laboratory (SLAC), Menlo Park, CA (United States)
Sponsoring Organization:
USDOE
Grant/Contract Number:
AC02-76SF00515; 2014M560587; 21403300; 21573129; 21773309
OSTI ID:
1425653
Journal Information:
Physical Chemistry Chemical Physics. PCCP, Vol. 19, Issue 46; ISSN 1463-9076
Publisher:
Royal Society of ChemistryCopyright Statement
Country of Publication:
United States
Language:
English
Citation Metrics:
Cited by: 7 works
Citation information provided by
Web of Science

References (48)

The Toxicity of Amyloid ß Oligomers journal June 2012
Time-Dependent Approach to Resonance Raman Spectra Including Duschinsky Rotation and Herzberg–Teller Effects: Formalism and Its Realistic Applications journal October 2012
Generalized Gradient Approximation Made Simple journal October 1996
Copper Ion Binding Site in β-Amyloid Peptide journal September 2016
Amyloid β Protein and Alzheimer’s Disease: When Computer Simulations Complement Experimental Studies journal March 2015
Coordination of redox active metal ions to the amyloid precursor protein and to amyloid-β peptides involved in Alzheimer disease. Part 2: Dependence of Cu(II) binding sites with Aβ sequences journal October 2012
NMR Reveals Anomalous Copper(II) Binding to the Amyloid Aβ Peptide of Alzheimer's Disease journal July 2006
Two-dimensional stimulated resonance Raman spectroscopy study of the Trp-cage peptide folding journal January 2013
Aggregation-Prone Amyloid-β⋅Cu II Species Formed on the Millisecond Timescale under Mildly Acidic Conditions journal May 2015
Quantum coherence selective 2D Raman–2D electronic spectroscopy journal March 2017
Structural Variations in the Cross-β Core of Amyloid β Fibrils Revealed by Deep UV Resonance Raman Spectroscopy journal May 2010
Structural Studies of Copper(I) Complexes of Amyloid-β Peptide Fragments: Formation of Two-Coordinate Bis(histidine) Complexes journal November 2008
Two-dimensional stimulated resonance Raman spectroscopy of molecules with broadband x-ray pulses journal May 2012
Deep UV Resonance Raman Spectroscopy of β-Sheet Amyloid Fibrils: A QM/MM Simulation journal December 2011
Femtosecond Stimulated Raman Spectroscopy journal May 2007
Two-dimensional IR spectroscopy and segmental 13C labeling reveals the domain structure of human  D-crystallin amyloid fibrils journal February 2012
Quantitative methods for structural characterization of proteins based on deep UV resonance Raman spectroscopy journal September 2010
Two-dimensional stimulated ultraviolet resonance Raman spectra of tyrosine and tryptophan: a simulation study: 2D stimulated UVRR spectra of Tyr and Trp journal March 2013
pH-Dependent Cu(II) Coordination to Amyloid-β Peptide: Impact of Sequence Alterations, Including the H6R and D7N Familial Mutations. journal November 2011
Insights into the aggregation mechanism of Aβ(25–40) journal January 2017
A structural model for Alzheimer's  -amyloid fibrils based on experimental constraints from solid state NMR journal December 2002
Low-Frequency Mode Activity of Heme: Femtosecond Coherence Spectroscopy of Iron Porphine Halides and Nitrophorin journal July 2008
Duschinsky, Herzberg–Teller, and Multiple Electronic Resonance Interferential Effects in Resonance Raman Spectra and Excitation Profiles. The Case of Pyrene journal July 2013
Elucidating Peptide and Protein Structure and Dynamics: UV Resonance Raman Spectroscopy journal January 2011
Redox Cycling of Copper–Amyloid β 1–16 Peptide Complexes Is Highly Dependent on the Coordination Mode journal December 2014
Natural transition orbitals journal March 2003
Electric and magnetic properties of CO, HF, HCI, and CH3F journal March 1982
Cu2+ Affects Amyloid-β (1–42) Aggregation by Increasing Peptide-Peptide Binding Forces journal March 2013
The d-d Transition Spectra of Copper (II) Complexes in Different Coordination Environment. Study on Cu(TTA)2 and Cu2(sacch)4(Im)4 journal January 1991
Metal ions, Alzheimer's disease and chelation therapy journal March 2011
Copper Binding to the Amyloid-β (Aβ) Peptide Associated with Alzheimer's Disease: FOLDING, COORDINATION GEOMETRY, pH DEPENDENCE, STOICHIOMETRY, AND AFFINITY OF Aβ-(1–28): INSIGHTS FROM A RANGE OF COMPLEMENTARY SPECTROSCOPIC TECHNIQUES journal February 2004
An Evaluation of Harmonic Vibrational Frequency Scale Factors journal November 2007
Binding of iron(III) to the single tyrosine residue of amyloid β-peptide probed by Raman spectroscopy journal October 2001
Generalized Gradient Approximation Made Simple [Phys. Rev. Lett. 77, 3865 (1996)] journal February 1997
Resolution of localized small molecule–Aβ interactions by deep-ultraviolet resonance Raman spectroscopy journal October 2011
Role of metal ions in the cognitive decline of Down syndrome journal June 2014
Introduction of a Fluorescent Probe to Amyloid-β to Reveal Kinetic Insights into Its Interactions with Copper(II) journal December 2014
UV Resonance Raman Studies of Molecular Structure and Dynamics: Applications in Physical and Biophysical Chemistry journal October 1988
Single-beam spectrally controlled two-dimensional Raman spectroscopy journal April 2015
Quantum Calculation of Molecular Energies and Energy Gradients in Solution by a Conductor Solvent Model journal March 1998
Targeting the proper amyloid-beta neuronal toxins: a path forward for Alzheimer’s disease immunotherapeutics journal January 2014
Self‐consistent molecular orbital methods 25. Supplementary functions for Gaussian basis sets journal April 1984
Metal Ions and Intrinsically Disordered Proteins and Peptides: From Cu/Zn Amyloid-β to General Principles journal May 2014
Two‐dimensional femtosecond vibrational spectroscopy of liquids journal December 1993
Significant Contributions of the Albrecht’s A Term to Nonresonant Raman Scattering Processes journal October 2015
UV Resonance Raman Investigations of Peptide and Protein Structure and Dynamics journal February 2012
On the Theory of Raman Intensities journal May 1961
Energies, structures, and electronic properties of molecules in solution with the C-PCM solvation model journal April 2003

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