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Evidence of Simultaneous Spectral Hole Burning Involving Two Tiers of the Protein Energy Landscape in Cytochrome b6f.

Author(s): Shafiei G, Levenberg A, Lujan MA, Picorel R, Zazubovich V

J Phys Chem B. 2019 Dec 12;: Authors: Shafiei G, Levenberg A, Lujan MA, Picorel R, Zazubovich V

Article GUID: 31763829

How Well Does the Hole-Burning Action Spectrum Represent the Site-Distribution Function of the Lowest-Energy State in Photosynthetic Pigment-Protein Complexes?

Author(s): Zazubovich V, Jankowiak R

J Phys Chem B. 2019 Jul 02;: Authors: Zazubovich V, Jankowiak R

Article GUID: 31265294

Comparison of Electronic and Physicochemical Properties between Imidazolium-Based and Pyridinium-Based Ionic Liquids.

Author(s): Wu C, De Visscher A, Gates ID

J Phys Chem B. 2018 07 05;122(26):6771-6780 Authors: Wu C, De Visscher A, Gates ID

Article GUID: 29889524

Low-temperature protein dynamics of the B800 molecules in the LH2 light-harvesting complex: spectral hole burning study and comparison with single photosynthetic complex spectroscopy.

Author(s): Grozdanov D, Herascu N, Reinot T, Jankowiak R, Zazubovich V

J Phys Chem B. 2010 Mar 18;114(10):3426-38 Authors: Grozdanov D, Herascu N, Reinot T, Jankowiak R, Zazubovich V

Article GUID: 20166717

Parameters of the protein energy landscapes of several light-harvesting complexes probed via spectral hole growth kinetics measurements.

Author(s): Herascu N, Najafi M, Amunts A, Pieper J, Irrgang KD, Picorel R, Seibert M, Zazubovich V

J Phys Chem B. 2011 Mar 31;115(12):2737-47 Authors: Herascu N, Najafi M, Amunts A, Pieper J, Irrgang KD, Picorel R, Seibert M, Zazubovich V

Article GUID: 21391534

Effects of the distributions of energy or charge transfer rates on spectral hole burning in pigment-protein complexes at low temperatures.

Author(s): Herascu N, Ahmouda S, Picorel R, Seibert M, Jankowiak R, Zazubovich V

J Phys Chem B. 2011 Dec 22;115(50):15098-109 Authors: Herascu N, Ahmouda S, Picorel R, Seibert M, Jankowiak R, Zazubovich V

Article GUID: 22046956

Spectral hole burning, recovery, and thermocycling in chlorophyll-protein complexes: distributions of barriers on the protein energy landscape.

Author(s): Najafi M, Herascu N, Seibert M, Picorel R, Jankowiak R, Zazubovich V

J Phys Chem B. 2012 Sep 27;116(38):11780-90 Authors: Najafi M, Herascu N, Seibert M, Picorel R, Jankowiak R, Zazubovich V

Article GUID: 22957798

Modeling of various optical spectra in the presence of slow excitation energy transfer in dimers and trimers with weak interpigment coupling: FMO as an example.

Author(s): Herascu N, Kell A, Acharya K, Jankowiak R, Blankenship RE, Zazubovich V

J Phys Chem B. 2014 Feb 27;118(8):2032-40 Authors: Herascu N, Kell A, Acharya K, Jankowiak R, Blankenship RE, Zazubovich V

Article GUID: 24506338

Fluorescence line narrowing and Δ-FLN spectra in the presence of excitation energy transfer between weakly coupled chromophores.

Author(s): Zazubovich V

J Phys Chem B. 2014 Nov 26;118(47):13535-43 Authors: Zazubovich V

Article GUID: 25369116

Conformational Changes in Pigment-Protein Complexes at Low Temperatures-Spectral Memory and a Possibility of Cooperative Effects.

Author(s): Najafi M, Herascu N, Shafiei G, Picorel R, Zazubovich V

J Phys Chem B. 2015 Jun 11;119(23):6930-40 Authors: Najafi M, Herascu N, Shafiei G, Picorel R, Zazubovich V

Article GUID: 25985255

Monte Carlo Modeling of Spectral Diffusion Employing Multiwell Protein Energy Landscapes: Application to Pigment-Protein Complexes Involved in Photosynthesis.

Author(s): Najafi M, Zazubovich V

J Phys Chem B. 2015 Jun 25;119(25):7911-21 Authors: Najafi M, Zazubovich V

Article GUID: 26020801

Probing Energy Landscapes of Cytochrome b6f with Spectral Hole Burning: Effects of Deuterated Solvent and Detergent.

Author(s): Levenberg A, Shafiei G, Lujan MA, Giannacopoulos S, Picorel R, Zazubovich V

J Phys Chem B. 2017 10 26;121(42):9848-9858 Authors: Levenberg A, Shafiei G, Lujan MA, Giannacopoulos S, Picorel R, Zazubovich V

Article GUID: 28956922

Effect of Saturated Very Long-Chain Fatty Acids on the Organization of Lipid Membranes: A Study Combining (2)H NMR Spectroscopy and Molecular Dynamics Simulations

Author(s): Adrian Paz Ramos

Little is known about the interaction of very long-chain saturated fatty acids (VLCFAs) with biological membranes. However, this could play an important role on interleaflet interactions and signal transduction mechanisms in cells. The aim of this work is t...

Article GUID: 27351151

Spectral Hole Burning in Cyanobacterial Photosystem I with P700 in Oxidized and Neutral States.

Author(s): Herascu N, Hunter MS, Shafiei G, Najafi M, Johnson TW, Fromme P, Zazubovich V

J Phys Chem B. 2016;120(40):10483-10495 Authors: Herascu N, Hunter MS, Shafiei G, Najafi M, Johnson TW, Fromme P, Zazubovich V

Article GUID: 27661089

Mechanism of the Nitric Oxide Dioxygenase Reaction of Mycobacterium tuberculosis Hemoglobin N

Author(s): Lavinia A Carabet

Many globins convert ^(•)NO to innocuous NO(3)^(-) through their nitric oxide dioxygenase (NOD) activity. Mycobacterium tuberculosis fights the oxidative and nitrosative stress imposed by its host (the toxic effects of O(2)^(•-) and ^(•)NO species and their...

Article GUID: 28835102

Cation-π Interactions between Quaternary Ammonium Ions and Amino Acid Aromatic Groups in Aqueous Solution

Author(s): Esam A Orabi

Cation-p interactions play important roles in the stabilization of protein structures and protein-ligand complexes. They contribute to the binding of quaternary ammonium ligands (mainly RNH(3)^(+) and RN(CH(3))(3)^(+)) to various protein receptors and are l...

Article GUID: 29397727

Modeling Protein S-Aromatic Motifs Reveals Their Structural and Redox Flexibility

Author(s): Esam A Orabi

S-aromatic motifs are important noncovalent forces for protein stability and function but remain poorly understood. Hence, we performed quantum calculations at the MP2(full)/6-311++G(d,p) level on complexes between Cys (H(2)S, MeSH) and Met (Me(2)S) models ...

Article GUID: 29533644


Title:Evidence of Simultaneous Spectral Hole Burning Involving Two Tiers of the Protein Energy Landscape in Cytochrome b6f.
Authors:Shafiei GLevenberg ALujan MAPicorel RZazubovich V
Link:https://www.ncbi.nlm.nih.gov/pubmed/31763829?dopt=Abstract
DOI:10.1021/acs.jpcb.9b09515
Category:J Phys Chem B
PMID:31763829
Dept Affiliation: PHYSICS
1 Department of Physics , Concordia University , 7141 Sherbrooke Str. West , Montreal , Quebec H4B 1R6 , Canada.
2 Estacion Experimental de Aula Dei (CSIC) , Avda. Montañana 1005 , 50059 Zaragoza , Spain.

Description:

Evidence of Simultaneous Spectral Hole Burning Involving Two Tiers of the Protein Energy Landscape in Cytochrome b6f.

J Phys Chem B. 2019 Dec 12;:

Authors: Shafiei G, Levenberg A, Lujan MA, Picorel R, Zazubovich V

Abstract

Cytochrome b6f, with one chlorophyll molecule per protein monomer, is a simple model system whose studies can help achieve a better understanding of nonphotochemical spectral hole burning (NPHB) and single-complex spectroscopy results obtained in more complicated photosynthetic chlorophyll-protein complexes. We are reporting new data and proposing an alternative explanation for spectral dynamics that was recently observed in cytochrome b6f using NPHB. The relevant distribution of the tunneling parameter ? is a superposition of two components that are nearly degenerate in terms of the resultant NPHB yield and represent two tiers of the energy landscape responsible for NPHB. These two components likely burn competitively; we present the first demonstration of modeling a competitive NPHB process. Similar values of the NPHB yield result from distinctly different combinations of barrier heights, shifts along the generalized coordinate d, and/or masses of the entities involved in conformational changes m, with md2 parameter different by a factor of 2.7. Consequently, in cytochrome b6f, the first (at least) 10 h of fixed-temperature recovery preferentially probe different components of the barrier- and ?-distributions encoded into the spectral holes than thermocycling experiments. Both components most likely represent dynamics of the protein and not of the surrounding buffer/glycerol glass.

PMID: 31763829 [PubMed - as supplied by publisher]