Towards an ab initio description of the optical spectra of light-harvesting antennae: application to the CP29 complex of photosystem II.
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Thomas Renger | Benedetta Mennucci | Sandro Jurinovich | Lucas Viani | T. Renger | B. Mennucci | Sandro Jurinovich | L. Viani | I. G. Prandi | Ingrid G Prandi
[1] Yoshinori Fujiyoshi,et al. Atomic model of plant light-harvesting complex by electron crystallography , 1994, Nature.
[2] R. van Grondelle,et al. Pathways and timescales of primary charge separation in the photosystem II reaction center as revealed by a simultaneous fit of time-resolved fluorescence and transient absorption. , 2005, Biophysical journal.
[3] K. Heyne,et al. Three-dimensional orientation of the Qy electronic transition dipole moment within the chlorophyll a molecule determined by femtosecond polarization resolved VIS pump-IR probe spectroscopy. , 2008, Journal of the American Chemical Society.
[4] T. Renger,et al. Understanding photosynthetic light-harvesting: a bottom up theoretical approach. , 2013, Physical chemistry chemical physics : PCCP.
[5] G. G. Stokes. "J." , 1890, The New Yale Book of Quotations.
[6] J. Kongsted,et al. Photosynthetic light-harvesting is tuned by the heterogeneous polarizable environment of the protein. , 2011, Journal of the American Chemical Society.
[7] Mei Li,et al. Structural insights into energy regulation of light-harvesting complex CP29 from spinach , 2011, Nature Structural &Molecular Biology.
[8] Knut Teigen,et al. LIPID11: a modular framework for lipid simulations using amber. , 2012, The journal of physical chemistry. B.
[9] Lu Zhang,et al. Force field development for cofactors in the photosystem II , 2012, J. Comput. Chem..
[10] N. Hush,et al. Assignment of the Qy absorption spectrum of photosystem-I from Thermosynechococcus elongatus based on CAM-B3LYP calculations at the PW91-optimized protein structure. , 2007, The journal of physical chemistry. B.
[11] John B. Shoven,et al. I , Edinburgh Medical and Surgical Journal.
[12] Caroline König,et al. First-principles calculation of electronic spectra of light-harvesting complex II. , 2011, Physical chemistry chemical physics : PCCP.
[13] G. Scholes,et al. Energy transfer in light-harvesting complexes LHCII and CP29 of spinach studied with three pulse echo peak shift and transient grating. , 2003, Biophysical journal.
[14] R. Bassi,et al. A specific binding site for neoxanthin in the monomeric antenna proteins CP26 and CP29 of Photosystem II , 2007, FEBS letters.
[15] W. Kühlbrandt,et al. Assignment of spectral substructures to pigment-binding sites in higher plant light-harvesting complex LHC-II. , 2002, Biochemistry.
[16] T. Renger,et al. Structure-based calculations of optical spectra of photosystem I suggest an asymmetric light-harvesting process. , 2010, Journal of the American Chemical Society.
[17] G. Fleming,et al. Elucidation of the timescales and origins of quantum electronic coherence in LHCII. , 2012, Nature chemistry.
[18] P. Kollman,et al. Settle: An analytical version of the SHAKE and RATTLE algorithm for rigid water models , 1992 .
[19] E. Peterman,et al. Spectroscopic characterization of the spinach Lhcb4 protein (CP29), a minor light-harvesting complex of photosystem II. , 1999, European journal of biochemistry.
[20] C. Curutchet,et al. The Fenna-Matthews-Olson protein revisited: a fully polarizable (TD)DFT/MM description. , 2014, Chemphyschem : a European journal of chemical physics and physical chemistry.
[21] R. Silbey,et al. Effect of correlation of local fluctuations on exciton coherence. , 2010, Journal of Chemical Physics.
[22] B. Mennucci,et al. Linear response theory for the polarizable continuum model , 1999 .
[23] Junmei Wang,et al. Development and testing of a general amber force field , 2004, J. Comput. Chem..
[24] T. Renger,et al. Structure-based identification of energy sinks in plant light-harvesting complex II. , 2010, The journal of physical chemistry. B.
[25] Jie Li,et al. Development of polarizable models for molecular mechanical calculations I: parameterization of atomic polarizability. , 2011, The journal of physical chemistry. B.
[26] F. Young. Biochemistry , 1955, The Indian Medical Gazette.
[27] J. Tomasi,et al. Quantum mechanical continuum solvation models. , 2005, Chemical reviews.
[28] K. Irrgang,et al. Excitation wavelength-dependent electron-phonon and electron-vibrational coupling in the CP29 antenna complex of green plants. , 2008, The journal of physical chemistry. B.
[29] R. Bassi,et al. Absorption spectra of chlorophyll a and b in Lhcb protein environment , 2004, Photosynthesis Research.
[30] J. Kongsted,et al. Electronic Energy Transfer in Condensed Phase Studied by a Polarizable QM/MM Model. , 2009, Journal of chemical theory and computation.
[31] Qiang Shi,et al. Theoretical study of the electronic-vibrational coupling in the Q(y) states of the photosynthetic reaction center in purple bacteria. , 2012, The journal of physical chemistry. B.
[32] I. Renge,et al. Spectral shift mechanisms of chlorophylls in liquids and proteins. , 2013, Spectrochimica acta. Part A, Molecular and biomolecular spectroscopy.
[33] J. Kongsted,et al. Energy flow in the cryptophyte PE545 antenna is directed by bilin pigment conformation. , 2013, The journal of physical chemistry. B.
[34] Alessandro Marin,et al. Intra- and inter-monomeric transfers in the light harvesting LHCII complex: the Redfield-Förster picture. , 2011, Physical chemistry chemical physics : PCCP.
[35] Thomas Renger,et al. Light harvesting in photosystem II core complexes is limited by the transfer to the trap: can the core complex turn into a photoprotective mode? , 2008, Journal of the American Chemical Society.
[36] Taehoon Kim,et al. CHARMM‐GUI: A web‐based graphical user interface for CHARMM , 2008, J. Comput. Chem..
[37] V. May,et al. Site-dependence of van der Waals interaction explains exciton spectra of double-walled tubular J-aggregates. , 2014, Physical chemistry chemical physics : PCCP.
[38] Roberta Croce,et al. Functional architecture of higher plant photosystem II supercomplexes , 2009, The EMBO journal.
[39] Jie Li,et al. Development of polarizable models for molecular mechanical calculations II: induced dipole models significantly improve accuracy of intermolecular interaction energies. , 2011, The journal of physical chemistry. B.
[40] T. Renger,et al. Towards a structure-based exciton Hamiltonian for the CP29 antenna of photosystem II. , 2014, Physical chemistry chemical physics : PCCP.
[41] Thomas Renger,et al. On the relation of protein dynamics and exciton relaxation in pigment–protein complexes: An estimation of the spectral density and a theory for the calculation of optical spectra , 2002 .
[42] 宁北芳,et al. 疟原虫var基因转换速率变化导致抗原变异[英]/Paul H, Robert P, Christodoulou Z, et al//Proc Natl Acad Sci U S A , 2005 .
[43] T. Morosinotto,et al. The Nature of a Chlorophyll Ligand in Lhca Proteins Determines the Far Red Fluorescence Emission Typical of Photosystem I* , 2003, Journal of Biological Chemistry.
[44] Mei Li,et al. Spectroscopic study of the light-harvesting CP29 antenna complex of photosystem II--part I. , 2013, The journal of physical chemistry. B.
[45] R. Rosenfeld. Nature , 2009, Otolaryngology--head and neck surgery : official journal of American Academy of Otolaryngology-Head and Neck Surgery.
[46] R. Jankowiak,et al. Modeling of optical spectra of the light-harvesting CP29 antenna complex of photosystem II--part II. , 2013, The journal of physical chemistry. B.
[47] G. Fleming,et al. Quantum coherence enabled determination of the energy landscape in light-harvesting complex II. , 2009, The journal of physical chemistry. B.
[48] N. Handy,et al. A new hybrid exchange–correlation functional using the Coulomb-attenuating method (CAM-B3LYP) , 2004 .
[49] T. Renger,et al. Normal Mode Analysis of the Spectral Density of the Fenna–Matthews–Olson Light-Harvesting Protein: How the Protein Dissipates the Excess Energy of Excitons , 2012, The journal of physical chemistry. B.
[50] K. Diederichs,et al. Förster excitation energy transfer in peridinin-chlorophyll-a-protein. , 2000, Biophysical journal.
[51] R. Bock,et al. Photosystem I: its biogenesis and function in higher plants. , 2011, Journal of plant physiology.
[52] R. Silbey,et al. Correlated intermolecular coupling fluctuations in photosynthetic complexes. , 2011, The Journal of chemical physics.
[53] Mei Li,et al. Architecture and function of plant light-harvesting complexes II. , 2013, Current opinion in structural biology.
[54] C. Varotto,et al. Chlorophyll Binding to Monomeric Light-harvesting Complex , 1999, The Journal of Biological Chemistry.
[55] Roberta Croce,et al. Light-harvesting and structural organization of Photosystem II: from individual complexes to thylakoid membrane. , 2011, Journal of photochemistry and photobiology. B, Biology.
[56] K. Schulten,et al. Quest for spatially correlated fluctuations in the FMO light-harvesting complex. , 2011, The journal of physical chemistry. B.
[57] E. Peterman,et al. The nature of the excited state of the reaction center of photosystem II of green plants: a high-resolution fluorescence spectroscopy study. , 1998, Proceedings of the National Academy of Sciences of the United States of America.
[58] G. Fleming,et al. Spectroscopic elucidation of uncoupled transition energies in the major photosynthetic light-harvesting complex, LHCII , 2010, Proceedings of the National Academy of Sciences.
[59] G. Fleming,et al. Solvation Dynamics in Protein Environments Studied by Photon Echo Spectroscopy , 1999 .
[60] Massimo Marchi,et al. An ab initio force field for the cofactors of bacterial photosynthesis , 2003, J. Comput. Chem..
[61] Jacopo Tomasi,et al. Excitation energy transfer (EET) between molecules in condensed matter: a novel application of the polarizable continuum model (PCM). , 2004, Journal of Chemical Physics.
[62] Th. Förster. Energiewanderung und Fluoreszenz , 1946 .
[63] T. Renger,et al. Refinement of a structural model of a pigment-protein complex by accurate optical line shape theory and experiments. , 2007, The journal of physical chemistry. B.
[64] G. Fleming,et al. Pathways of energy flow in LHCII from two-dimensional electronic spectroscopy. , 2009, The journal of physical chemistry. B.
[65] B. Spring,et al. Dipole Strengths in the Chlorophylls¶,† , 2003 .
[66] V. Hornak,et al. Comparison of multiple Amber force fields and development of improved protein backbone parameters , 2006, Proteins.
[67] David W. Russell,et al. Photosystem II: the reaction center of oxygenic photosynthesis. , 2013, Annual review of biochemistry.
[68] Robert Eugene Blankenship. Early Evolution of Photosynthesis1 , 2010, Plant Physiology.
[69] C. Curutchet,et al. Spatial and Electronic Correlations in the PE545 Light-Harvesting Complex. , 2013, The journal of physical chemistry letters.
[70] A. Young,et al. Determination of the Stoichiometry and Strength of Binding of Xanthophylls to the Photosystem II Light Harvesting Complexes* , 1999, The Journal of Biological Chemistry.
[71] Zhenfeng Liu,et al. Crystal structure of spinach major light-harvesting complex at 2.72 Å resolution , 2004, Nature.
[72] Gorjan Alagic,et al. #p , 2019, Quantum information & computation.
[73] James Barber,et al. Architecture of the Photosynthetic Oxygen-Evolving Center , 2004, Science.
[74] W. Kühlbrandt,et al. Mechanisms of photoprotection and nonphotochemical quenching in pea light‐harvesting complex at 2.5 Å resolution , 2005, The EMBO journal.