Design and synthesis of light energy harvesting proteins

Energy Harvesting Materials

Volumn , Issue , 2005, Pages 27-64

  Noy, Dror ^a   Discher, Bohdana M ^a   Dutton, P Leslie ^a  

^a NONE

Author keywords

Length scales; maquettes; top down and bottom up protein design

Indexed keywords

CHROMOPHORES; ELECTRON TRANSITIONS; ELECTRON TUNNELING; ENERGY HARVESTING; ENERGY TRANSFER; LIGHT; PROTEINS;

BOTTOM UP; ELECTRON TRANSFER PROCESS; ELECTRON TRANSFER RATES; HIGH-RESOLUTION STRUCTURES; LENGTH SCALE; LIGHT ENERGY HARVESTING; MAQUETTES; PHOTOVOLTAIC CONVERSION;

BIOSYNTHESIS;

EID: 84967488899     PISSN: None     EISSN: None     Source Type: Book    
DOI: 10.1142/9789812700957_0002     Document Type: Chapter

References (104)

1. Markvart T. Light harvesting for quantum solar energy conversion. Prog. Quant. Electron. 2000; 24: 107-186.
2. Goetzberger A, Hebling C, and Schock HW. Photovoltaic materials, history, status and outlook. Mater. Sci. Eng. R. 2003; 40: 1-46.
3. Moser CC, Page CC, Cogdell RJ, Barber J, Wraight CA, and Dutton PL. Length, time, and energy scales of photosystems. In Membrane Proteins, edited by DC Rees. Advances in Protein Chemistry, Academic Press, New York, 2003. 63:71-109.
4. Robertson DE, Farid RS, Moser CC, Urbauer JL, Mulholland SE, Pidikiti R, Lear JD, Wand AJ, Degrado WF, and Dutton PL. Design and Synthesis of Multi-Heme Proteins. Nature 1994; 368: 425-431.
5. Skalicky JJ, Gibney BR, Rabanal F, Urbauer RJB, Dutton PL, and Wand AJ. Solution structure of a designed four-alpha-helix bundle maquette scaffold. J. Am. Chem. Soc. 1999; 121: 4941-4951.
6. Huang SS, Gibney BR, Stayrook SE, Dutton PL, and Lewis M. X-ray structure of a maquette scaffold. J. Molec. Biol. 2003; 326: 1219-1225.
7. Huang SS, Koder RL, Lewis M, Wand AJ, and Dutton PL. The HP-1 maquette: from an apoprotein to a structured hemoprotein designed to promote redox-coupled proton exchange. Proc. Natl. Acad. Sci. USA 2004; in press.
8. DeGrado WF, Summa CM, Pavone V, Nastri F, and Lombardi A. De novo design and structural characterization of proteins and metalloproteins. Annu. Rev. Biochem. 1999; 68: 779-819.
9. Barker PD. Designing redox metalloproteins from bottom-up and top-down perspectives. Curr. Op. Struct. Biol. 2003; 13: 490-499.
10. Chamberlain AK, Faham S, Yohannan S, and Bowie JU. Construction of helix-bundle membrane proteins. In Membrane Proteins, edited by DC Rees. Advances in Protein Chemistry, Academic Press, New York, 2003. 63:19-46.
11. Koepke J, Hu XC, Muenke C, Schulten K, and Michel H. The crystal structure of the light-harvesting complex II (B800-850) from Rhodospirillum molischianum. Structure 1996; 4: 581-597.
12. McDermott G, Prince SM, Freer AA, Hawthornthwaite-Lawless AM, Papiz MZ, Cogdell RJ, and Isaacs NW. Crystal-Structure of an Integral Membrane Light-Harvesting Complex from Photosynthetic Bacteria. Nature 1995; 374: 517-521.
13. Papiz MZ, Prince SM, Howard T, Cogdell RJ, and Isaacs NW. The structure and thermal motion of the B800-850 LH2 complex from Rps. acidophila at 2.0 A resolution and 100 K: New structural features and functionally relevant motions. J. Molec. Biol. 2003; 326: 1523-1538.
14. McLuskey K, Prince SM, Cogdell RJ, and Isaacs NW. The crystallographic structure of the B800-820 LH3 light-harvesting complex from the purple bacteria Rhodopseudomonas acidophila strain 7050. Biochemistry 2001; 40: 8783-8789.
15. Camara-Artigas A, Blankenship RE, and Allen JP. The structure of the FMO protein from Chlorobium tepidum at 2.2 angstrom resolution. Photosynth. Res. 2003; 75: 49-55.
16. Hofmann E, Wrench PM, Sharpies FP, Hiller RG, Welte W, and Diederichs K. Structural basis of light harvesting by carotenoids: Peridinin-chlorophyllprotein from Amphidinium carterae. Science 1996; 272: 1788-1791.
17. Wilk KE, Harrop SJ, Jankova L, Edler D, Keenan G, Sharpies F, Hiller RG, and Curmi PMG. Evolution of a light-harvesting protein by addition of new subunits and rearrangement of conserved elements: Crystal structure of a cryptophyte phycoerythrin at 1.63-angstrom resolution. Proc. Natl. Acad. Sci. USA 1999; 96: 8901-8906.
18. Nield J, Rizkallah PJ, Barber J, and Chayen NE. The 1.45 angstrom threedimensional structure of C-phycocyanin from the thermophilic cyanobacterium Synechococcus elongatus. J. Struct. Biol. 2003; 141: 149-155.
19. Kamiya N, and Shen JR. Crystal structure of oxygen-evolving photosystem II from Thermosynechococcus vulcanus at 3.7-angstrom resolution. Proc. Natl. Acad. Sci. USA 2003; 100: 98-103.
20. Jordan P, Fromme P, Witt HT, Klukas O, Saenger W, and Krauss N. Threedimensional structure of cyanobacterial photosystem I at 2.5 angstrom resolution. Nature 2001; 411: 909-917.
21. Vasil'ev S, Orth P, Zouni A, Owens TG, and Bruce D. Excited-state dynamics in photosystem II: Insights from the x-ray crystal structure. Proc. Natl. Acad. Sci. USA 2001; 98: 8602-8607.
22. Roszak AW, Howard TD, Southall J, Gardiner AT, Law CJ, Isaacs NW, and Cogdell RJ. Crystal Structure of the RC-LH1 Core Complex from Rhodopseudomonaspalustris. Science 2003; 302: 1969-1972.
23. Heathcote P, Jones MR, and Fyfe PK. Type I photo synthetic reaction centers: structure and function. Phil. Trans. R. Soc. B 2003; 358: 231-243.
24. Fyfe PK, Jones MR, and Heathcote P. Insights into the evolution of the antenna domains of Type-I and Type-II photosynthetic reaction centers through homology modeling. FEBSLett. 2002; 530: 117-123.
25. Nield J, Morris EP, Bibby TS, and Barber J. Structural analysis of the photosystem I supercomplex of cyanobacteria induced by iron deficiency. Biochemistry 2003; 42: 3180-3188.
26. Remigy HW, Stahlberg H, Fotiadis D, Muller SA, Wolpensinger B, Engel A, Hauska G, and Tsiotis G. The reaction center complex from the green sulfur bacterium Chlorobium tepidum: A structural analysis by scanning transmission electron microscopy. J. Molec. Biol 1999; 290: 851-858.
27. Remigy HW, Hauska G, Muller SA, and Tsiotis G. The reaction centre from green sulphur bacteria: progress towards structural elucidation. Photosynth. Res. 2002; 71: 91-98.
28. Scheuring S, Seguin J, Marco S, Levy D, Robert B, and Rigaud JL. Nanodissection and high-resolution imaging of the Rhodopseudomonas viridis photosynthetic core complex in native membranes by AFM. Proc. Natl. Acad. Sci. USA 2003; 100: 1690-1693.
29. Scheuring S, Seguin J, Marco S, Levy D, Breyton C, Robert B, and Rigaud JL. AFM characterization of tilt and intrinsic flexibility of Rhodobacter sphaeroides light harvesting complex 2 (LH2). J. Molec. Biol. 2003; 325: 569-580.
30. Humphrey W, Dalke A, and Schulten K. VMD: Visual molecular dynamics. JMol Graphics 1996; 14: 33-38.
31. Pearlstein RM. Photosynthetic exciton theory in the 1960s. Photosynth. Res. 2002; 73: 119-126.
32. Scholes GD. Long-range resonance energy transfer in molecular systems. Annu. Rev. Phys. Chem. 2003; 54: 57-87.
33. Montano GA, Bowen BP, LaBelle JT, Woodbury NW, Pizziconi VB, and Blankenship RE. Characterization of Chlorobium tepidum chlorosomes: A calculation of bacteriochlorophyll c per chlorosome and oligomer modeling. Biophys. J. 2003; 85: 2560-2565.
34. Yang M, Damjanovic A, Vaswani HM, and Fleming GR. Energy transfer in photosystem I of cyanobacteria Synechococcus elongatus: Model study with structure-based semi-empirical Hamiltonian and experimental spectral density. Biophys. J. 2003; 85: 140-158.
35. Sener MK, Lu DY, Ritz T, Park S, Fromme P, and Schulten K. Robustness and optimality of light harvesting in cyanobacterial photosystem I. J. Phys. Chem. B 2002; 106: 7948-7960.
36. Ritz T, Park S, and Schulten K. Kinetics of excitation migration and trapping in the photosynthetic unit of purple bacteria. J. Phys. Chem. B 2001; 105: 8259-8267.
37. Katiliene Z, Katilius E, and Woodbury NW. Energy trapping and detrapping in reaction center mutants from Rhodobacter sphaeroides. Biophys. J. 2003; 84: 3240-3251.
38. Gardiner AT, Cogdell RJ, and Takaichi S. The Effect of Growth-Conditions on the Light-Harvesting Apparatus in Rhodopseudomonas-Acidophila. Photosynth. Res. 1993; 38: 159-167.
39. Herek JL, Fraser NJ, Pullerits T, Martinsson P, Polivka T, Scheer H, Cogdell RJ, and Sundstrom V. B800 - B850 energy transfer mechanism in bacterial LH2 complexes investigated by B800 pigment exchange. Biophys. J. 2000; 78: 2590-2596.
40. Hu XC, Ritz T, Damjanovic A, Autenrieth F, and Schulten K. Photosynthetic apparatus of purple bacteria. Q. Rev. Biophys. 2002; 35: 1-62.
41. Damjanovic A, Ritz T, and Schulten K. Excitation transfer in the peridininchlorophyll- protein of Amphidinium carterae. Biophys. J. 2000; 79: 1695-1705.
42. Ake RL, and Gouterman M. Porphyrins XIV. Theory for the luminescent state in VO, Co, Cu complexes. Theoretica Chim. Acta 1969; 15: 20-42.
43. Ake RL, and Gouterman M. Porphyrins XX. Theory for states of Ni(d8) complexes. Theoretica Chim. Acta 1970; 17: 408-416.
44. Musewald C, Hartwich G, Lossau H, Gilch P, Pollinger-Dammer F, Scheer H, and Michel-Beyerle ME. Ultrafast photophysics and photochemistry of [Ni]- bacteriochlorophyll a. J. Phys. Chem. B 1999; 103: 7055-7060.
45. Fiedor L, Leupold D, Teuchner K, Voigt B, Hunter CN, Scherz A, and Scheer H. Excitation trap approach to analyze size and pigment-pigment coupling: Reconstitution of LH1 antenna of Rhodobacter sphaeroides with Ni-substituted bacteriochlorophyll. Biochemistry 2001; 40: 3737-3747.
46. Law CJ, and Cogdell RJ. The effect of chemical oxidation on the fluorescence of the LH1 (B880) complex from the purple bacterium Rhodobium marimum. FEES Lett. 1998; 432: 27-30.
47. Moser CC, Keske JM, Warncke K, Farid RS, and Dutton PL. Nature of Biological Electron-Transfer. Nature 1992; 355: 796-802.
48. Ritz T, Damjanovic A, and Schulten K. The quantum physics of photosynthesis. Chem Phys Chem 2002; 3: 243-248.
49. Mukamel S, and Berman O. Self-consistent density matrix algorithm for electronic structure and excitations of molecules and aggregates. J. Chem. Phys. 2003; 119: 12194-12204.
50. Srivatsan N, Kolbasov D, Ponomarenko N, Weber S, Ostafin AE, and Norris JR. Cryogenic charge transport in oxidized purple bacterial lightharvesting 1 complexes. J. Phys. Chem. B 2003; 107: 7867-7876.
51. Srivatsan N, Weber S, Kolbasov D, and Norris JR. Exploring charge migration in light-harvesting complexes using electron paramagnetic resonance line narrowing. J. Phys. Chem. B 2003; 107: 2127-2138.
52. Kropacheva TN, and Hoff AJ. Electrochemical oxidation of bacteriochlorophyll a in reaction centers and antenna complexes of photosynthetic bacteria. J. Phys. Chem. B 2001; 105: 5536-5545.
53. Farchaus JW, Wachtveitl J, Mathis P, and Oesterhelt D. Tyrosine-162 of the Photosynthetic Reaction-Center L-Subunit Plays a Critical Role in the Cytochrome-C(2) Mediated Rereduction of the Photooxidized Bacteriochlorophyll Dimer in Rhodobacter-Sphaeroides.
54. Site-Directed Mutagenesis and Initial Characterization. Biochemistry 1993; 32: 10885-10893.
55. Bottin H, and Mathis P. Interaction of Plastocyanin with the Photosystem-I Reaction Center - a Kinetic-Study by Flash Absorption-Spectroscopy. Biochemistry 1985; 24: 6453-6460.
56. Jeans C, Schilstra MJ, and Klug DR. The temperature dependence of P680(+) reduction in oxygen-evolving photosystem. Biochemistry 2002; 41: 5015-5023.
57. Klimov VV. Discovery of pheophytin function in the photosynthetic energy conversion as the primary electron acceptor of Photosystem II. Photosynth. Res. 2003; 76: 247-253.
58. Watanabe T. Electrochemistry of chlorophylls. In Chlorophylls, edited by Scheer H. CRC Press, Boca Raton, 1991; 287-315.
59. Scholes GD. Designing light-harvesting antenna systems based on superradiant molecular aggregates. Chem. Phys. 2002; 275: 373-386.
60. Ball P. Natural strategies for the molecular engineer. Nanotechnology 2002; 13: R15-R28.
61. Lehn JM. Toward complex matter: Supramolecular chemistry and selforganization. Proc. Natl. Acad. Sci. USA 2002; 99: 4763-4768.
62. Roco MC. Nanotechnology: convergence with modern biology and medicine. Current Opinion in Biotechnology 2003; 14: 337-346.
63. Shifman JM, Moser CC, Kalsbeck WA, Bocian DF, and Dutton PL. Functionalized de novo designed proteins: Mechanism of proton coupling to oxidation/reduction in heme protein maquettes. Biochemistry 1998; 37: 16815-16827.
64. Grosset AM, Gibney BR, Rabanal F, Moser CC, and Dutton PL. Proof of principle in a de novo designed protein maquette: An allosterically regulated, charge-activated conformational switch in a tetra-alpha-helix bundle. Biochemistry 2001; 40: 5474-5487.
65. Sharp RE, Moser CC, Rabanal F, and Dutton PL. Design, synthesis, and characterization of a photoactivatable flavocytochrome molecular maquette. Proc. Natl. Acad. Sci. USA 1998; 95: 10465-10470.
66. Chen XX, Discher BM, Pilloud DL, Gibney BR, Moser CC, and Dutton PL. De novo design of a cytochrome b maquette for electron transfer and coupled reactions on electrodes. J. Phys. Chem. B 2002; 106: 617-624.
67. Bowie JU. Understanding membrane protein structure by design. Nature Struct. Biol. 2000; 7: 91-94.
68. Fowler GJS, Sockalingum GD, Robert B, and Hunter CN. Blue Shifts in Bacteriochlorophyll Absorbency Correlate with Changed Hydrogen- Bonding Patterns in Light-Harvesting 2 Mutants of Rhodobacter- Sphaeroides with Alterations at Alpha-Tyr-44 and Alpha-Tyr-45. Biochem. J. 1994; 299: 695-700.
69. Fowler GJS, Hess S, Pullerits T, Sundstrom V, and Hunter CN. The role of beta Arg(-10) in the B800 bacteriochlorophyll and carotenoid pigment environment within the light-harvesting LH2 complex of Rhodobacter sphaeroides. Biochemistry 1997; 36: 11282-11291.
70. Olsen JD, Sturgis JN, Westerhuis WHJ, Fowler GJS, Hunter CN, and Robert B. Site-directed modification of the ligands to the bacteriochlorophylls of the light-harvesting LH1 and LH2 complexes of Rhodobacter sphaeroides. Biochemistry 1997; 36: 12625-12632.
71. Sturgis JN, and Robert B. Thermodynamics of Membrane Polypeptide Oligomerization in Light-Harvesting Complexes and Associated Structural- Changes. J. Molec. Biol. 1994; 238: 445-454.
72. Sturgis JN, and Robert B. The role of chromophore coupling in tuning the spectral properties of peripheral light-harvesting protein of purple bacteria. Photosynth. Res. 1996; 50: 5-10.
73. Braun P, Olsen JD, Strohmann B, Hunter CN, and Scheer H. Assembly of light-harvesting bacteriochlorophyll in a model transmembrane helix in its natural environment. J. Molec. Biol. 2002; 318: 1085-1095.
74. Parkes-Loach PS, Sprinkle JR, and Loach PA. Reconstitution of the B873 Light-Harvesting Complex of Rhodospirillum-Rubrum from the Separately Isolated Alpha- Polypeptide and Beta-Polypeptide and Bacteriochlorophyll- A. Biochemistry 1988; 27: 2718-2727.
75. Parkes-Loach PS, Michalski TJ, Bass WJ, Smith U, and Loach PA. Probing the Bacteriochlorophyll Binding-Site by Reconstitution of the Light- Harvesting Complex of Rhodospirillum-Rubrum with Bacteriochlorophyll-a Analogs. Biochemistry 1990; 29: 2951-2960.
76. Meadows KA, Iida K, Tsuda K, Recchia PA, Heller BA, Antonio B, Nango M, and Loach PA. Enzymatic and Chemical Cleavage of the Core Light- Harvesting Polypeptides of Photosynthetic Bacteria - Determination of the Minimal Polypeptide Size and Structure Required for Subunit and Light- Harvesting Complex-Formation. Biochemistry 1995; 34: 1559-1574.
77. Loach PA, and Parkes-Loach PS. Structure-function relationships in core light-harvesting complexes (LHI) as determined by characterization of the structural subunit and by reconstitution experiments. In Anoxygenic photosynthetic bacteria, edited by Blankenship RE, Madigan MT, and Bauer CE. Kluwer, New York, 1995; 437-471.
78. Davis CM, Parkes-Loach PS, Cook CK, Meadows KA, Bandilla M, Scheer H, and Loach PA. Comparison of the structural requirements for bacteriochlorophyll binding in the core light-harvesting complexes of Rhodospirillum rubrum and Rhodobacter sphaeroides using reconstitution methodology with bacteriochlorophyll analogs. Biochemistry 1996; 35: 3072-3084.
79. Kehoe JW, Meadows KA, Parkes-Loach PS, and Loach PA. Reconstitution of core light-harvesting complexes of photosynthetic bacteria using chemically synthesized polypeptides.
80. Determination of structural features that stabilize complex formation and their implications for the structure of the subunit complex. Biochemistry 1998; 37: 3418-3428.
81. Meadows KA, Parkes-Loach PS, Kehoe JW, and Loach PA. Reconstitution of core light-harvesting complexes of photosynthetic bacteria using chemically synthesized polypeptides.
82. Minimal requirements for subunit formation. Biochemistry 1998; 37: 3411-3417.
83. Todd JB, Recchia PA, Parkes-Loach PS, Olsen JD, Fowler GJS, McGlynn P, Hunter CN, and Loach PA. Minimal requirements for in vitro reconstitution of the structural subunit of light-harvesting complexes of photosynthetic bacteria. Photosynth. Res. 1999; 62: 85-98.
84. Nango M, Kashiwada A, Watanabe H, Yamada S, Yamada T, Ogawa M, Tanaka T, and Iida K. Molecular assembly of bachteriochlorophyll a using light-harvesting model 1 alpha-helix polypeptides and 2 alpha-helix polypeptide with disulfide-linkage. Chem. Lett. 2002: 312-313.
85. Kashiwada A, Takeuchi Y, Watanabe H, et al. Molecular assembly of covalently-linked mesoporphyrin dimers with light-harvesting polypeptides. Tetrahedron Lett. 2000; 41: 2115-2119.
86. Kashiwada A, Watanabe H, Mizuno T, Iida K, Miyatake T, Tamiaki H, Kobayashi M, and Nango M. Structural requirements of zinc porphyrin derivatives on the complex-forming with light-harvesting polypeptides. Chem. Lett. 2000: 158-159.
87. Kashiwada A, Watanabe H, Tanaka T, and Nango M. Molecular assembly of zinc bachteriochlorophyll a by synthetic hydrophobic 1 alpha-helix polypeptides. Chem. Lett. 2000: 24-25.
88. Nagata M, Nango M, Kashiwada A, Yamada S, Ito S, Sawa N, Ogawa M, Iida K, Kurono Y, and Ohtsuka T. Construction of photosynthetic antenna complex using light-harvesting polypeptide-alpha from photosynthetic bacteria, R. rubrum with zinc substituted bacteriochlorophyll alpha. Chem. Lett. 2003; 32:216-217.
89. Noy D, Moser CC, and Dutton PL. Bacteriochlorophyll protein maquettes. In Biochemistry and Biophysics of Chlorophylls, edited by Grimm B, Porra R, Riidiger W, and Scheer H. Kluwer Academic, New York, 2004.
90. Wang ZY, Muraoka Y, Nagao M, Shibayama M, Kobayashi M, and Nozawa T. Determination of the B820 subunit size of a bacterial core lightharvesting complex by small-angle neutron scattering. Biochemistry 2003; 42: 11555-11560.
91. Fisher JRE, Rosenbachbelkin V, and Scherz A. Cooperative Polymerization of Photosynthetic Pigments in Formamide-Water Solution. Biophys. J. 1990; 58: 461-470.
92. Scherz A, Rosenbachbelkin V, and Fisher JRE. Distribution and Self- Organization of Photosynthetic Pigments in Micelles - Implication for the Assembly of Light-Harvesting Complexes and Reaction Centers in the Photosynthetic Membrane. Proc. Natl. Acad. Sci. USA 1990; 87: 5430-5434.
93. Rau HK, Snigula H, Struck A, Robert B, Scheer H, and Haehnel W. Design, synthesis and properties of synthetic chlorophyll proteins. Eur. J. Biochem. 2001;268:3284-3295.
94. Noy D. Unpublished results. 2004.
95. Razeghifard AR, and Wydrzynski T. Binding of Zn-chlorin to a synthetic four-helix bundle peptide through histidine ligation. Biochemistry 2003; 42: 1024-1030.
96. Kashiwada A, Nishino N, Wang ZY, Nozawa T, Kobayashi M, and Nango M. Molecular assembly of bacteriochlorophyll a and its analogues by synthetic 4 alpha-helix polypeptides. Chem. Lett. 1999; 1301-1302.
97. Eggink LL, and Hoober JK. Chlorophyll binding to peptide maquettes containing a retention motif. J. Biol. Chem. 2000; 275: 9087-9090.
98. Discher BM, Koder RL, Moser CC, and Dutton PL. Hydrophilic to amphiphilic design in redox protein maquettes. Curr. Op. Chem. Biol. 2003; 7: 741-748.
99. Nishimura K, Kim SG, Zhang L, and Cross TA. The closed state of a H+ channel helical bundle combining precise orientational and distance restraints from solid state NMR-1. Biochemistry 2002; 41: 13170-13177.
100. Lear JD, Wasserman ZR, and Degrado WF. Synthetic Amphiphilic Peptide Models for Protein Ion Channels. Science 1988; 240: 1177-1181.
101. Iwata S, Lee JW, Okada K, Lee JK, Iwata M, Rasmussen B, Link TA, Ramaswamy S, and Jap BK. Complete structure of the 11-subunit bovine mitochondrial cytochrome bc(l) complex. Science 1998; 281: 64-71.
102. Ye S, Discher BM, Strzalka JW, Noy D, Zheng S, Dutton PL, and Blasie JK. Amphiphilic 4-helix bundles designed for biomolecular materials applications. Langmuir 2004: submitted.
103. Discher BM. Unpublished results. 2004.
104. Teuchner K, Stiel H, Leupold D, Scherz A, Noy D, Simonin I, Hartwich G, and Scheer H. Fluorescence and excited state absorption in modified pigments of bacterial photosynthesis - A comparative study of metalsubstituted bacteriochlorophylls a. J. Luminesc. 1997; 72-4: 612-614.