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Deshmukh SS, Akhavein H, Williams JC, Allen JP, Kálmán L. Light-Induced Conformational Changes in Photosynthetic Reaction Centers: Impact of Detergents and Lipids on the Electronic Structure of the Primary Electron Donor. Biochemistry 2011; 50:5249-62. [DOI: 10.1021/bi200595z] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Affiliation(s)
- S. S. Deshmukh
- Department of Physics, Concordia University, Montreal, Quebec H4B 1R6, Canada
| | - H. Akhavein
- Department of Physics, Concordia University, Montreal, Quebec H4B 1R6, Canada
| | - J. C. Williams
- Department of Chemistry and Biochemistry, Arizona State University, Tempe, Arizona, 85287-1604, United States
| | - J. P. Allen
- Department of Chemistry and Biochemistry, Arizona State University, Tempe, Arizona, 85287-1604, United States
| | - L. Kálmán
- Department of Physics, Concordia University, Montreal, Quebec H4B 1R6, Canada
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Krammer EM, Sebban P, Ullmann GM. Profile Hidden Markov Models for Analyzing Similarities and Dissimilarities in the Bacterial Reaction Center and Photosystem II. Biochemistry 2009; 48:1230-43. [DOI: 10.1021/bi802033k] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Eva-Maria Krammer
- Structural Biology/Bioinformatics, University of Bayreuth, Universitätsstrasse 30, BGI, 95447 Bayreuth, Germany, and Laboratoire de Chimie Physique, UMR 8000, University P. XI/CNRS, Bât. 350, Faculté d’Orsay, 91405 Orsay Cedex, France
| | - Pierre Sebban
- Structural Biology/Bioinformatics, University of Bayreuth, Universitätsstrasse 30, BGI, 95447 Bayreuth, Germany, and Laboratoire de Chimie Physique, UMR 8000, University P. XI/CNRS, Bât. 350, Faculté d’Orsay, 91405 Orsay Cedex, France
| | - G. Matthias Ullmann
- Structural Biology/Bioinformatics, University of Bayreuth, Universitätsstrasse 30, BGI, 95447 Bayreuth, Germany, and Laboratoire de Chimie Physique, UMR 8000, University P. XI/CNRS, Bât. 350, Faculté d’Orsay, 91405 Orsay Cedex, France
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Cao Y, Chen D, Wu X, Kong J, Zou Y, Xu C. PROBING ELECTRON TRANSFER OF THE REDOX SPECIES IN WILD-TYPE RC PROTEIN AND ITS PIGMENT-REPLACED MUTANTS RE-CONSTITUTED IN SELF-ASSEMBLY MONOLAYERS. ANAL LETT 2007. [DOI: 10.1081/al-100103214] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Affiliation(s)
- Yibin Cao
- a Department of Chemistry , Fudan University , Shanghai , 200433 , China
| | - Dandan Chen
- a Department of Chemistry , Fudan University , Shanghai , 200433 , China
| | - Xingliang Wu
- a Department of Chemistry , Fudan University , Shanghai , 200433 , China
| | - Jilie Kong
- b Department of Chemistry , Fudan University , Shanghai , 200433 , China
| | - Yonglong Zou
- c Shanghai Institute of Plant Physiology, Chinese Academy of Sciences , 200032 , China
| | - Chunhe Xu
- c Shanghai Institute of Plant Physiology, Chinese Academy of Sciences , 200032 , China
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Vanderkooi JM, Dashnau JL, Zelent B. Temperature excursion infrared (TEIR) spectroscopy used to study hydrogen bonding between water and biomolecules. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 2005; 1749:214-33. [PMID: 15927875 DOI: 10.1016/j.bbapap.2005.03.008] [Citation(s) in RCA: 57] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/06/2004] [Revised: 02/15/2005] [Accepted: 03/09/2005] [Indexed: 11/22/2022]
Abstract
Water is a highly polar molecule that is capable of making four H-bonding linkages. Stability and specificity of folding of water-soluble protein macromolecules are determined by the interplay between water and functional groups of the protein. Yet, under some conditions, water can be replaced with sugar or other polar protic molecules with retention of protein structure. Infrared (IR) spectroscopy allows one to probe groups on the protein that interact with solvent, whether the solvent is water, sugar or glycerol. The basis of the measurement is that IR spectral lines of functional groups involved in H-bonding show characteristic spectral shifts with temperature excursion, reflecting the dipolar nature of the group and its ability to H-bond. For groups involved in H-bonding to water, the stretching mode absorption bands shift to lower frequency, whereas bending mode absorption bands shift to higher frequency as temperature decreases. The results indicate increasing H-bonding and decreasing entropy occurring as a function of temperature, even at cryogenic temperatures. The frequencies of the amide group modes are temperature dependent, showing that as temperature decreases, the amide group H-bonds to water strengthen. These results are relevant to protein stability as a function of temperature. The influence of solvent relaxation is demonstrated for tryptophan fluorescence over the same temperature range where the solvent was examined by infrared spectroscopy.
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Affiliation(s)
- Jane M Vanderkooi
- Johnson Research Foundation, Department of Biochemistry and Biophysics, School of Medicine, University of Pennsylvania, Philadelphia, 19104-6059, USA.
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Johnson ET, Müh F, Nabedryk E, Williams JC, Allen JP, Lubitz W, Breton J, Parson WW. Electronic and Vibronic Coupling of the Special Pair of Bacteriochlorophylls in Photosynthetic Reaction Centers from Wild-Type and Mutant Strains of Rhodobacter Sphaeroides. J Phys Chem B 2002. [DOI: 10.1021/jp021024q] [Citation(s) in RCA: 37] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- E. T. Johnson
- Department of Biochemistry, Box 357350, University of Washington, Seattle, Washington 98195-7350, Institut für Experimentalphysik, Freie Universität Berlin, Arnimallee 14, D-14195 Berlin, Germany, Service de Bioénergétique, CEA Saclay, Bât 532, F-91191 Gif Sur Yvette Cedex France, Department of Chemistry and Biochemistry, Arizona State University, Tempe, Arizona 85287, and Max-Planck-Institut für Strahlenchemie, Stiftstr. 34−36, D-45470 Mülheim/Ruhr, Germany
| | - F. Müh
- Department of Biochemistry, Box 357350, University of Washington, Seattle, Washington 98195-7350, Institut für Experimentalphysik, Freie Universität Berlin, Arnimallee 14, D-14195 Berlin, Germany, Service de Bioénergétique, CEA Saclay, Bât 532, F-91191 Gif Sur Yvette Cedex France, Department of Chemistry and Biochemistry, Arizona State University, Tempe, Arizona 85287, and Max-Planck-Institut für Strahlenchemie, Stiftstr. 34−36, D-45470 Mülheim/Ruhr, Germany
| | - E. Nabedryk
- Department of Biochemistry, Box 357350, University of Washington, Seattle, Washington 98195-7350, Institut für Experimentalphysik, Freie Universität Berlin, Arnimallee 14, D-14195 Berlin, Germany, Service de Bioénergétique, CEA Saclay, Bât 532, F-91191 Gif Sur Yvette Cedex France, Department of Chemistry and Biochemistry, Arizona State University, Tempe, Arizona 85287, and Max-Planck-Institut für Strahlenchemie, Stiftstr. 34−36, D-45470 Mülheim/Ruhr, Germany
| | - J. C. Williams
- Department of Biochemistry, Box 357350, University of Washington, Seattle, Washington 98195-7350, Institut für Experimentalphysik, Freie Universität Berlin, Arnimallee 14, D-14195 Berlin, Germany, Service de Bioénergétique, CEA Saclay, Bât 532, F-91191 Gif Sur Yvette Cedex France, Department of Chemistry and Biochemistry, Arizona State University, Tempe, Arizona 85287, and Max-Planck-Institut für Strahlenchemie, Stiftstr. 34−36, D-45470 Mülheim/Ruhr, Germany
| | - J. P. Allen
- Department of Biochemistry, Box 357350, University of Washington, Seattle, Washington 98195-7350, Institut für Experimentalphysik, Freie Universität Berlin, Arnimallee 14, D-14195 Berlin, Germany, Service de Bioénergétique, CEA Saclay, Bât 532, F-91191 Gif Sur Yvette Cedex France, Department of Chemistry and Biochemistry, Arizona State University, Tempe, Arizona 85287, and Max-Planck-Institut für Strahlenchemie, Stiftstr. 34−36, D-45470 Mülheim/Ruhr, Germany
| | - W. Lubitz
- Department of Biochemistry, Box 357350, University of Washington, Seattle, Washington 98195-7350, Institut für Experimentalphysik, Freie Universität Berlin, Arnimallee 14, D-14195 Berlin, Germany, Service de Bioénergétique, CEA Saclay, Bât 532, F-91191 Gif Sur Yvette Cedex France, Department of Chemistry and Biochemistry, Arizona State University, Tempe, Arizona 85287, and Max-Planck-Institut für Strahlenchemie, Stiftstr. 34−36, D-45470 Mülheim/Ruhr, Germany
| | - J. Breton
- Department of Biochemistry, Box 357350, University of Washington, Seattle, Washington 98195-7350, Institut für Experimentalphysik, Freie Universität Berlin, Arnimallee 14, D-14195 Berlin, Germany, Service de Bioénergétique, CEA Saclay, Bât 532, F-91191 Gif Sur Yvette Cedex France, Department of Chemistry and Biochemistry, Arizona State University, Tempe, Arizona 85287, and Max-Planck-Institut für Strahlenchemie, Stiftstr. 34−36, D-45470 Mülheim/Ruhr, Germany
| | - W. W. Parson
- Department of Biochemistry, Box 357350, University of Washington, Seattle, Washington 98195-7350, Institut für Experimentalphysik, Freie Universität Berlin, Arnimallee 14, D-14195 Berlin, Germany, Service de Bioénergétique, CEA Saclay, Bât 532, F-91191 Gif Sur Yvette Cedex France, Department of Chemistry and Biochemistry, Arizona State University, Tempe, Arizona 85287, and Max-Planck-Institut für Strahlenchemie, Stiftstr. 34−36, D-45470 Mülheim/Ruhr, Germany
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Schenkl S, Spörlein S, Müh F, Witt H, Lubitz W, Zinth W, Wachtveitl J. Selective perturbation of the second electron transfer step in mutant bacterial reaction centers. BIOCHIMICA ET BIOPHYSICA ACTA 2002; 1554:36-47. [PMID: 12034469 DOI: 10.1016/s0005-2728(02)00211-6] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
In order to specifically perturb the primary electron acceptor B(A) -- a monomeric bacteriochlorophyll (BChl) a -- involved in bacterial photosynthetic charge separation (CS), the protein environment of B(A) in the reaction center (RC) of Rhodobacter sphaeroides was modified by site-directed mutagenesis. Isolated RCs were characterized by redox titrations, low temperature optical spectroscopy, ENDOR/TRIPLE resonance spectroscopy and femtosecond time-resolved spectroscopy. Two mutations were studied: In the GS(M203) mutant a serine is introduced near the ring E keto group of B(A), while in FY(L146) a phenylalanine near the ring A acetyl group of B(A) is replaced by tyrosine. In all mutations the oxidation potential of the primary electron donor P as well as the electronic structure of both the P(*+) radical cation and the radical anion of the secondary electron acceptor, H(A)(*-), are not significantly altered compared to the wild type (WT), while changes of the optical absorption spectra at 77 K in the BChl Q(X) and Q(Y) regions are observed. The GS(M203) mutation only leads to a minor retardation of the CS reactions at room temperature, whereas for FY(L146) significant deviations from the native electron transfer (ET) rates could be detected: In addition to a faster first (2.9 ps) and a slower second (1 ps) ET step, a new 8-ps time constant was found in the FY(L146) mutant, which can be ascribed to a fraction of RCs with slowed down secondary ET. The results allow us to address the functional role of the acetyl group of B(A) and question the role of the free energy changes as the main determining factor of ET rates in RCs. It is concluded that structural rearrangements alter the electronic coupling between the pigments and thereby influence the rate of fast CS.
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Affiliation(s)
- Selma Schenkl
- Sektion Physik, Ludwig-Maximilians-Universität München, Oettingenstr. 67, 80538 Munich, Germany
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Hughes JM, Hutter MC, Reimers JR, Hush NS. Modeling the bacterial photosynthetic reaction center. 4. The structural, electrochemical, and hydrogen-bonding properties of 22 mutants of Rhodobacter sphaeroides. J Am Chem Soc 2001; 123:8550-63. [PMID: 11525663 DOI: 10.1021/ja0035710] [Citation(s) in RCA: 35] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Site-directed mutagenesis has been employed by a number of groups to produce mutants of bacterial photosynthetic reaction centers, with the aim of tuning their operation by modifying hydrogen-bond patterns in the close vicinity of the "special pair" of bacteriochlorophylls P identical with P(L)P(M). Direct X-ray structural measurements of the consequences of mutation are rare. Attention has mostly focused on effects on properties such as carbonyl stretching frequencies and midpoint potentials to infer indirectly the induced structural modifications. In this work, the structures of 22 mutants of Rhodobacter sphaeroides have been calculated using a mixed quantum-mechanical molecular-mechanical method by modifying the known structure of the wild type. We determine (i) the orientation of the 2a-acetyl groups in the wild type, FY(M197), and FH(M197) series mutants of the neutral and oxidized reaction center, (ii) the structure of the FY(M197) mutant and possible water penetration near the special pair, (iii) that significant protein chain distortions are required to assemble some M160 series mutants (LS(M160), LN(M160), LQ(M160), and LH(M160) are considered), (iv) that there is competition for hydrogen-bonding between the 9-keto and 10a-ester groups for the introduced histidine in LH(L131) mutants, (v) that the observed midpoint potential of P for HL(M202) heterodimer mutants, including one involving also LH(M160), can be correlated with the change of electrostatic potential experienced at P(L), (vi) that hydrogen-bond cleavage may sometimes be induced by oxidation of the special pair, (vii) that the OH group of tyrosine M210 points away from P(M), and (viii) that competitive hydrogen-bonding effects determine the change in properties of NL(L166) and NH(L166) mutants. A new technique is introduced for the determination of ionization energies at the Koopmans level from QM/MM calculations, and protein-induced Stark effects on vibrational frequencies are considered.
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Affiliation(s)
- J M Hughes
- Department of Biochemistry, School of Chemistry, University of Sydney, Sydney, NSW 2006, Australia
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