Cramer Lab

Structure-Function of Cytochrome b₆f

1. Hasan, S. S., J. T. Stofleth, E. Yamashita, and W. A. Cramer. 2013. Lipid-Induced Conformational Changes within the Cytochrome b₆f Complex of Oxygenic Photosynthesis, Biochemistry, 52:2649-2654.
2. Hasan, S. S., E. Yamashita, and W. A. Cramer. 2013. Trans-Membrane Signaling and Assembly of the Cytochrome b₆f-Lipidic Charge Transfer Complex, Biochim Biophys Acta (Bioenergetics), Review, in press.
3. Hasan, S. S., D. Baniulis, J. Stofleth, E. Yamashita, M. Zhalnina, S. D. Zakharov and W. A. Cramer.  2013.  Interactions of Detergents and Lipids with a α-Helical and β-Barrel Integral Membrane Proteins, and of Lipids with a “Part-Time” Helical Protein,  Current Protocols in Protein Science, in press.
4. Cramer, W. A., E. Yamashita, and S. S. Hasan. 2013. Structure-Function of the Cytochrome b₆f Complex of Oxygenic Photosynthesis; in Encyclopedia of Biological Chemistry-2^nd Edition, (eds. M. D. Lane and W. J. Lennarz), Vol. 4, Academic Press, Waltham MA, pp 167-171.
5. Hasan, S. S., E. Yamashita, D. Baniulis, and W. A. Cramer.  2013.  Quinone-Dependent Proton Transfer Pathways in the Photosynthetic Cytochrome b₆f Complex. Proc. Natl. Acad. Sci., U. S. A.,110: 4297-4302.  PMID: 23440405.
6. Hasan, S. S., E. Yamashita, D. Baniulis, and W. A. Cramer. 2013. An Anhydrous Proton Transfer Pathway in the Cytochrome b₆f Complex, 57th Biophysical Society Annual Mtg. February, 2013, Philadelphia, PA. (abstract)
7. Baniulis, D., J. T. Stofleth, S. S. Hasan, and W. A. Cramer. 2013. Increased Superoxide Production in the Cytochrome b₆f complex: A function for the enigmatic chlorophyll-A, 57th Biophysical Society Annual Mtg. February, 2013, Philadelphia, PA. (abstract)
8. Zakharov, S. D., S. S. Hasan, A. Chauvet, S. Savikhin, and W. A. Cramer. 2013. Electrostatically Constrained Pathway of Intra/Monomer Electron Transfer int he Cytochrome b₆f Complex of Oxygenic Photosynthesis, 57th Biophysical Society Annual Mtg. February, 2013, Philadelphia, PA. (abstract)
9. Hasan, S. S. and W. A. Cramer.  2012. Lipid Functions in Cytochrome bc Complexes: an Odd Evolutionary Transition in a Membrane Protein Structure, Structure and Dynamics of the Thylakoid Membrane Royal Society Philosophical Transactions B (P. Horton, ed.), 367, 3406-3411. PMID: 23148267 (in process) PMCID: PMC3497066 (available 12/19/2013)
10. Cramer, W. A., E. Yamashita, and S. S. Hasan. 2013. Structure-Function of the Cytochrome b₆f Complex of Oxygenic Photosynthesis, Encyclopedia of Biological Chemistry-2^nd Edition, (eds. M. D. Lane and W. J. Lennarz), Springer, in press.
11. Hasan, S. S., D. Baniulis, J. Stofleth, E. Yamashita, M. Zhalnina, S. D. Zakharov and W. A. Cramer.  2013.  Interactions of Detergents and Lipids with a α-Helical and β-Barrel Integral Membrane Proteins, and of Lipids with a “Part-Time” Helical Protein.  Current Protocols in Protein Science, in press.
12. Hasan, S. S. and W. A. Cramer.  2012.  On Rate Limitations of Electron Transfer in the Photosynthetic Cytochrome b₆f Complex, Physical Chemistry Chemical Physics, 2012, 14, 13853-13860. PMID: 22890107 (in process) PMCID: PMC 3505453 (available 10/28/2013)
13. Cramer, W. A., E. Yamashita, S. S. Hasan, and D. Baniulis. 2012. Cytochrome b₆f Complex. Encyclopedia of Biophysic (Vol. 1), (ed. G. Roberts), Springer-Verlag Berlin Heidelbert, 417-422.
14. Souda, P., C. M. Ryan, W. A. Cramer, and J. Whitelegge. 2011. Profiling of Integral Membrane Proteins and Their Post-translational Modifications Using High-resolution Mass Spectrometry, Methods of Membrane Protein Expression and Stabilization (R. Stevens, ed.), Methods: Membrane Protein Technologies for Structural Biology (ed., R. Stevens), 55, 330-336, Elsevier Press, San Diego.
15. Hasan, S. S., E. Yamashita, C. Ryan, J. Whitelegge, and W. A. Cramer. 2011. Conservation of lipid functions in cytochrome bc complexes, J. Mol. Biol. 414, 145-162. PMID: 21978667 PMCID: PMC3215850
16. Cramer, W. A., S. S. Hasan and E. Yamashita.  2011. The Q Cycle of Cytochrome bc Complexes: a Structure Perspective (a review), Biochim. Biophys. Acta-Bioenergetics, 1807, 788-802. PMID: 21352799 PMCID: PMC3101715
17. Cramer, W. A., S. D. Zakharov, E. Yamashita, S. Saif Hasan, H. Zhang, D. Baniulis, M. V. Zhalnina, G. M. Soriano, J. C. Rochet, C. Ryan, and J. Whitelegge. 2011. Membrane Proteins in Four Acts: Function Precedes Structure Determination, Methods: Membrane Protein Technologies for Structural Biology (ed., R. Stevens), Elsevier Press, San Diego, 55, 415-420.
18. Ryan CM, Souda P, Bassilian S, Ujwal R, Zhang J, Abramson J, Ping P, Durazo A, Bowie JU, Hasan SS, Baniulis D, Cramer WA, Faull KF, Whitelegge JP. 2010. Post-translational modifications of integral membrane proteins resolved by top-down Fourier transform mass spectrometry with collisionally activated dissociation, Mol Cell Proteomics. 9, 791-803. Epub 2010 Jan 21. PMID: 20093275 PMCID: PMC2871414
19. Cramer, W. A., S. Savikhin, J. Yan, and E. Yamashita. 2010. The Enigmatic Chlorophyll a Molecule in the Cytochromeb₆f Complex, in The Chloroplast, (C. Rebeiz, editor), chapt. 6, pp. 88-93, Springer, New York.
20. Twigg, A. I., D. Baniulis, W. A. Cramer, and M. P. Hendrich. 2009. EPR Detection of an O₂ Surrogate Bound to Heme c_n of the Cytochrome b₆f Complex, J. Amer. Chem. Soc., 131, 12536-12537. PMID: 19681932 PMCID: PMC2806809
    
21. Baniulis, D., E. Yamashita, J.P. Whitelegge, A. Zatsman, M.P. Hendrich, and W.A. Cramer 2009. Structure-function and stability of the cyanobacterial cytochrome b₆f complex from Nostoc sp, PCC 7120. J. Biol. Chem., 284, 9861–9869.  PMID: 19189962 PMCID: PMC2665108
22. Baniulis, D., E. Yamashita, H. Zhang, S. S. Hasan, and W. A. Cramer. 2008. Structure-Function of the Cytochrome b₆f Complex. Photochemistry and Photobiology, 84, 1349-1358. PMID: 19067956
23. Yan, J., N. Dashdorj, D. Baniulis, E. Yamashita, S. Savikhin, and W. A. Cramer. 2008. On the Structural Role of the Aromatic Residue Environment of the Chlorophyll a in the Cytochrome b₆f Complex, Biochemistry, 47, 3654-3461. PMID: 18302324
24. Cramer, W. A, D. Baniulis, E. Yamashita, H. Zhang, A.I. Zatsman, M.P. Hendrich. 2008. Structure, spectroscopy, and function of the cytochrome b₆f complex: heme c_n and n-side electron and proton transfer reactions, Photosynthetic Protein Complexes. A Structural Approach (P. Fromme, ed.), Wiley-VCH, Weinheim, pp. 155-179.
25. Dashdorj N., E. Yamashita­­, J. Schaibley, W. A. Cramer, and S. Savikhin. 2007. Ultrafast Optical Pump-Probe Studies of the Cytochrome b₆f Complex in Solution and Crystalline States. J. Phys. Chem. B. 2007, 111, 14405-14410. PMID: 18047317
26. Yamashita, E., Zhang, H., and Cramer, W. A. 2007. Structure-function of the cytochrome b₆f complex: quinone analogue inhibitors as ligands of the heme c_n, J. Mol. Biol., 370, 39-52. PMID: 17498743 PMCID: PMC1993820
27. Cramer, W. A., H. Zhang, J. Yan, G. Kurisu, E. Yamashita, N. Dashdorj, H. Kim, and S. Savikhin. 2007. Structure-function of the cytochrome b₆f complex: a design that has worked for three billion years; in Primary Processes of Photosynthesis, vol. 2, Reaction Centers/Photosystems, Electron Transport Chains (G. Renger, ed.),  Comprehensive Series in Photosciences (D. P. Haeder and D. Jori, series eds.), Royal Society of London, London, UK, pp. 419-448.
28. Zatsman, A. I., H. Zhang, W. A. Gunderson, W. A. Cramer, and M. P. Hendrich. 2006. Heme-heme interactions in the cytochrome b₆f complex EPR spectroscopy and correlation with structure, J. Am. Chem. Soc., 128, 14246-14247. PMID: 17076484 PMCID: PMC2812023
29. Cramer, W. A. and H. Zhang. 2006. Consequences of the Structure of the Cytochrome b₆f Complex for Its Charge Transfer Mechanisms.(Proc. XIV European Bioenergetics Congress) Biochim. Biophys. Acta, 1757, 339-345. PMID: 16787635
30. Cramer, W. A., H. Zhang, J. Yan, G. Kurisu and J. L. Smith. 2006. Trans-membrane traffic in the cytochrome b₆f complex. Ann. Rev. Biochem., 75, 769-790. PMID: 16756511
31. Whitelegge, J. P., A. Lagonowsky, J. Nishio, P. Souda, H. Zhang, and W. A. Cramer. 2006. Sequencing covalent modifications of membrane proteins. J. Exptl. Botany (Special Issue, Plant Proteomics), 57, 1515-1522. PMID: 16574746
32. Adams, K. L., S. Tsoi, J. Yan, Stephen M. Durbin, A. K. Ramdas, W. A. Cramer, W. Sturhahn, E. E. Alp, and C. Schulz. 2006. Fe vibrational spectroscopy of myoglobin and cytochrome f. J. Phys. Chem. B., 110, 530-536. PMID: 16471565
33. Yan, J., G. Kurisu, and W. A. Cramer. 2006. Intraprotein transfer of the quinone analogue inhibitor 2,5-dibromo-3-methyl-6-isopropyl-p-benzoquinone in the cytochrome b₆f complex, Proc. Natl. Acad. Sci, USA, 103, 69-74. PMID: 16371475 PMCID: PMC1324977
34. Cramer, W. A., H. Zhang, J. Yan and G. Kurisu. 2005. Binding sites of lipophilic quinone and quinone analogue inhibitors in the cytochrome b₆f complex of oxygenic photosynthesis, Biochem. Soc. Transactions 33, 921–923.
35. Kim, H.,N. Dashdorj, H. Zhang, J. Yan, W. A. Cramer, and S. Savikhin. 2005. An Anomalous Distance Dependence of Intra-Protein Chlorophyll-Carotenoid Triplet Energy Transfer, Biophys. J. Letters, 89, L28-L30.
36. Zhang, H., & W. A. Cramer. 2005. Problems in obtaining diffraction-quality crystals of hetero- oligomeric integral membrane proteins. J. Struct. Funct. Genomics (NIGMS Protein Production and Crystallization Workshop), 6, 219-223.
37. Dashdorj, N., H. Zhang, H. Kim, J. Yan, W. A. Cramer, and S. Savikhin. 2005. The Single Chlorophyll a Molecule in the Cytochrome b₆f Complex: Unusual Optical Properties Protect the Complex against Singlet Oxygen. Biophys. J., 88, 4178-4187.
38. Zhang, H., A. Primak, M. K. Bowman, D. M. Kramer and W. A. Cramer. 2004. Characterization of the high spin nature of heme x in the cytochrome b₆f complex of oxygenic photosynthesis, Biochemistry, 43, 16329-16336.
39. Yan, J., and W. A. Cramer. 2004. Molecular control of a bimodal distribution of quinone-analogue inhibitor binding sites in the cytochrome b₆f complex, J. Mol. Biol, 344, 481-493.
40. Cramer, W. A., J. Yan, H. Zhang, G. Kurisu and J. L. Smith. 2004. Structure of the cytochrome b₆f complex: new prosthetic groups, Q-space, and the "hors d'oeuvres hypothesis" for assembly of the complex. Photosyn. Res., 85, 133-144.
41. Smith, J. L., H. Zhang, J. Yan, G. Kurisu, and W. A. Cramer. 2004. Cytochrome bc complexes: a common core of structure and function surrounded by diversity in the outlying provinces. Current Opinion in Structural Biology (eds., S. Iwata & H. R. Kaback), 14, 432-439.
42. Cramer, W. A., H. Zhang, J. Yan, G. Kurisu, & JL Smith,. 2004. Evolution of photosynthesis: Time independent structure of the cytochrome b₆f complex of oxygenic photosynthesis, Biochemistry (Review), 43, 5921-5929.
43. Cramer, W. A. 2004. Ironies in photosynthetic electron transport: a personal perspective. In Historical Perspectives of Photosynthesis (Govindjee and J. Allen, eds.) Photosyn Res., 80, 293-305.
44. Zhang, H., and W. A. Cramer. 2004. Purification and Crystallization of the Cytochrome b₆f Complex in Oxygenic Photosynthesis. Methods in Molecular Biology, Vol. 274: Photosynthesis Research Protocols,  (Ed., R. Carpentier), Humana Press Inc, Totowa, NJ, pp. 67-78.
45. Kurisu, G., H. Zhang, J. L. Smith, & W. A. Cramer. 2003. Structure and mechanism of the cytochrome b₆f complex of oxygenic photosynthesis: Tuning the cavity, Science, 302, 1009-1014. PMID: 14526088
46. Zhang, H., G. Kurisu*, J. L. Smith & W. A. Cramer. 2003. A Defined Protein-Detergent-Lipid Complex for Crystallization of Integral Membrane Proteins: The Cytochrome b₆f Complex of Oxygenic Photosynthesis, Proc. Natl. Acad. Sci., USA, 100, 5160-5163.
47. Yan, J., & W. A. Cramer. 2003. Functional insensitivity of the cytochrome b₆f complex to structure changes in the hinge region of the Rieske iron-sulfur protein, J. Biol. Chem., 278, 20925-20933.
48. Whitelegge, J, H Zhang, R Taylor, & WA Cramer. 2002. Full subunit coverage liquid chromatography electrospray-ionization mass spectrometry (LCMS+) of an oligomeric membrane protein complex: the cytochrome b₆f complex from spinach and the cyanobacterium, Mastigocladus laminosus. Molec. Cell. Proteomics, 1, 816-827.
49. Soriano, G. M., L. W. Guo, C. de Vitry, T. Kallas, & W. A. Cramer. 2002. Electron transfer from the Rieske iron-sulfur protein to cytochrome f in vitro: Is a guided trajectory necessary for competent docking? J. Biol. Chem., 277, 41865-41871.
50. Soriano, G. M., & W. A. Cramer. 2001. Deuterium kinetic isotope effects in the p-side pathway for quinol oxidation by the cytochrome b₆f complex, Biochemistry, 40, 15109-1511.
51. H. Zhang, J. P. Whitelegge, and W. A. Cramer. 2001. Ferredoxin:NADP+ reductase is a subunit of the plant cytochrome b₆f complex,  J. Biol. Chem., 276, 38159-38165.
52. Soriano, G. M., J. L. Smith, & W. A. Cramer. 2001. Cytochrome f, Handbook of Metalloproteins (Eds., K Weighardt, R. Huber, T. Poulos, and A, Messerschmidt), John Wiley & Sons, Chichester, Vo.l. 1, pp. 172-181.
53. Heimann, S., M. V. Ponamarev, and W. A. Cramer. 2000. Movement of the Rieske iron-sulfur protein in the p-side bulk aqueous phase: effect of lumenal viscosity on redox reactions of the cytochrome b₆f complex, Biochemistry, 39, 2622-262.
54. Ponamarev, M. V., B. Schlarb, C. J. Carrell,, C. J. Howe, J. L. Smith, D. S. Bendall and W. A. Cramer. 2000. Tryptophan-heme p-electrostatic interactions in cytochrome f of oxygenic photosynthesis, Biochemistry, 39, 5971-5976.
55. Sainz, G., C. J. Carrell, M. V. Ponamarev, G. M. Soriano, W. A. Cramer, and J. L. Smith. 2000. Interruption of the internal water chain of cytochrome f impairs photosynthetic function, Biochemistry, 39, 9164-9173.
56. Carrell, C. J., B. G. Schlarb, C. J. Howe, D. S. Bendall, W. A. Cramer, and J. L. Smith. 1999. Structure of the cytochrome f soluble domain from Phormidium laminosus: Convergent evolution of the membrane-bound c-type cytochromes from respiratory and photosynthetic bc complexes. Biochemistry, 38, 9590-9599.