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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: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.
Authors:Herascu N,  Kell A,  Acharya K,  Jankowiak R,  Blankenship RE,  Zazubovich V
Link:https://www.ncbi.nlm.nih.gov/pubmed/24506338?dopt=Abstract
Category:J Phys Chem B
PMID:24506338
Dept Affiliation: PHYSICS
1 Department of Physics, Concordia University , Montreal, H4B 1R6 Quebec, Canada.

Description:

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.

J Phys Chem B. 2014 Feb 27;118(8):2032-40

Authors: Herascu N, Kell A, Acharya K, Jankowiak R, Blankenship RE, Zazubovich V

Abstract

We present an improved simulation methodology to describe nonphotochemical hole-burned (NPHB) spectra. The model, which includes both frequency-dependent excitation energy transfer (EET) rate distributions and burning following EET, provides reasonable fits of various optical spectra including resonant and nonresonant holes in the case of FMO complex. A qualitative description of the NPHB process in light of a very complex protein energy landscape is briefly discussed. As an example, we show that both resonant and nonresonant HB spectra obtained for the 825 nm band of the trimeric FMO of C. tepidum are consistent with the presence of a relatively slow EET between the lowest energy states of the monomers of the trimer (mostly localized on BChl a 3), with a weak (~1 cm(-1)) coupling between these states revealed via calculated emission spectra. We argue that the nature of the so-called 825 nm absorption band of the FMO trimer, contrary to the presently accepted consensus, cannot be explained by a single transition.

PMID: 24506338 [PubMed - indexed for MEDLINE]