A Comparison of Stigmatellin Conformations, Free and Bound to the Photosynthetic Reaction Center and the Cytochrome bc1 Complex

Journal of Molecular Biology

Volumn 368, Issue 1, 2007, Pages 197-208

  Lancaster, C Roy D ^a   Hunte, Carola ^a   Kelley III, Jack ^b   Trumpower, Bernard L ^c   Ditchfield, Robert ^d  

^a MAX PLANCK INSTITUTE OF BIOPHYSICS   (Germany)

^b Dartmouth College ^*  (United States)

^c DARTMOUTH MEDICAL SCHOOL   (United States)

^d NONE   (United States)

Author keywords

conformational energy; electron transfer; inhibitor; membrane protein complexes; X ray crystal structures

Indexed keywords

MEMBRANE PROTEIN; STIGMATELLIN; UBIQUINOL CYTOCHROME C REDUCTASE;

ARTICLE; ENZYME ACTIVITY; ENZYME CHEMISTRY; ENZYME CONFORMATION; INTERMETHOD COMPARISON; NONHUMAN; ORIENTING RESPONSE; PHOTOSYNTHESIS; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN CONFORMATION; STEREOCHEMISTRY; YEAST;

BACTERIA (MICROORGANISMS);

EID: 33947302684     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jmb.2007.02.013     Document Type: Article

References (39)

1. Crane F.L. The discovery of coenzyme Q. A commentary on isolation of a quinone from beef heart mitochondria. Biochim. Biophys. Acta 1000 (1989) 358-363
2. In: Trumpower B.L. (Ed). Function of Quinones in Energy Conserving Systems (1982), Academic Press, New York
3. Lancaster C.R.D. Purple bacteria: photosynthetic reaction centers. In: Lennarz W.J., and Lane M.D. (Eds). Encyclopedia of Biological Chemistry (2004), Elsevier Science Inc, New York 586-594
4. 1 complex (respiratory chain complex III). In: Lennarz W.J., and Lane M.D. (Eds). Encyclopedia of Biological Chemistry (2004), Elsevier Science Inc., New York 528-534
5. Mitchell P. Possible mechanisms of protonmotive function of cytochrome systems. J. Theor. Biol. 62 (1976) 327-367
6. Oettmeier W., and Preuße S. Herbicide and quinone binding to chromatophores and reaction centers from Rhodobacter sphaeroides. Z. Naturforsch. 42c (1987) 690-692
7. B-binding site in the reaction center of photosynthetic bacteria. In: Biggins J. (Ed). Progress in Photosynthesis Research vol. 2 (1987), Martinus Nijhoff Publishers, Dordrecht 409-412
8. Oettmeier W., Godde D., Kunze B., and Höfle G. Stigmatellin. A dual type inhibitor of photosynthetic electron transport. Biochim. Biophys. Acta 807 (1985) 216-219
9. 1 segment of the respiratory chain. Biochim. Biophys. Acta 765 (1984) 227-235
10. 1 complex. Methods Enzymol. 126 (1986) 253-271
11. Kunze B., Kemmer T., Hofle G., and Reichenbach H. Stigmatellin, a new antibiotic from Stigmatella aurantiaca (Myxobacterales) I. Production, physico-chemical and biological properties. J. Antibiot. 37 (1984) 454-461
12. Enders D., Geibel G., and Osboren S. Diastereo- and enantioselective total synthesis of stigmatellin A. Chem. Eur. J. 6 (2000) 1302-1309
13. B. Structure 5 (1997) 1339-1359
14. 1 complex from the yeast Saccharomyces cerevisiae co-crystallized with an antibody Fv fragment. Structure 8 (2000) 669-684
15. 1 complex. Science 281 (1998) 64-71
16. 1 complex: a new crystal structure reveals an altered intramolecular hydrogen-bonding pattern. J. Mol. Biol. 351 (2005) 573-597
17. 1 complex. J. Mol. Biol. 341 (2004) 281-302
18. 1: comparison with its mitochondrial and chloroplast counterparts. Photosynth. Res. 81 (2004) 251-275
19. 1 complex. Proc. Natl Acad. Sci. USA 103 (2006) 13045-13050
20. Michel H., Weyer K.A., Gruenberg H., Dunger I., Oesterhelt D., and Lottspeich F. The{combining comma below} light' and{combining comma below} medium' subunits of the photosynthetic reaction centre from Rhodopseudomonas viridis: isolation of the genes, nucleotide and amino acid sequence. EMBO J. 5 (1986) 1149-1158
21. Deisenhofer J., and Michel H. The photosynthetic reaction centre from the purple bacterium Rhodopseudomonas viridis. EMBO J. 8 (1989) 2149-2170
22. Lancaster C.R.D., and Michel H. Photosynthetic reaction centers of purple bacteria. In: Wieghardt K., Huber R., Poulos T., and Messerschmidt A. (Eds). Handbook of Metalloproteins vol. 1 (2001), Wiley, Chichester 119-135
23. o site inhibitor bound. J. Biol. Chem. 278 (2003) 31303
24. Hehre W.J., Ditchfield R., and Pople J.A. Self-consistent molecular orbital methods. XII. Further extensions of Gaussian-type basis sets for use in molecular orbital studies of organic molecules. J. Chem. Phys. 56 (1972) 2257-2261
25. Hariharan P.C., and Pople J.A. Effect of d-functions on molecular orbital energies for hydrocarbons. Chem. Phys. Letters 66 (1972) 217-219
26. Clark M., Cramer III R.D., and van Opdenbosch N. Validation of the general purpose tripos 5.2 force field. J. Comput. Chem. 10 (1989) 982-1012
27. Lancaster C.R.D., Bibikova M.V., Sabatino P., Oesterhelt D., and Michel H. Structural basis of the drastically increased initial electron transfer rate in a reaction center from Rhodopseudomonas viridis mutant described at 2.00 Å resolution. J. Biol. Chem. 275 (2000) 39364-39368
28. Lancaster C.R.D., and Michel H. Refined crystal structures of reaction centres from Rhodopseudomonas viridis in complexes with the herbicide atrazine and two chiral atrazine derivatives also lead to a new model of the bound carotenoid. J. Mol. Biol. 286 (1999) 883-898
29. 1 complex. Evidence for an alternating, half-of-the-sites mechanism of ubiquinol oxidation. J. Biol. Chem. 277 (2002) 1195-1202
30. Stowell M.H., McPhillips T.M., Rees D.C., Soltis S.M., Abresch E., and Feher G. Light-induced structural changes in photosynthetic reaction center: implications for mechanism of electron-proton transfer. Science 276 (1997) 812-816
31. Fritzsch G., Koepke J., Diem R., Kuglstatter A., and Baciou L. Charge separation induces conformational changes in the photosynthetic reaction centre of purple bacteria. Acta Crystallog. sect. D 58 (2002) 1660-1663
32. Dewar M.J.S., Zoebisch E.G., Healy E.F., and Stewart J.J.P. AM1: a new general purpose quantum mechanical molecular model. J. Am. Chem. Soc. 107 (1985) 3902-3909
33. Otwinowski Z., and Minor W. Processing of X-ray diffraction data collected in oscillation mode. Methods Enzymol. 276 (1997) 307-326
34. Hodel A., Kim S.-H., and Brünger A.T. Model bias in macromolecular crystal structures. Acta Crystallog. sect. A 48 (1992) 851-858
35. Brünger A.T., Adams P.D., Clore G.M., DeLano W.L., Gros P., Grosse-Kunstleve R.W., et al. Crystallography and NMR system: a new software suite for macromolecular structure determination. Acta Crystallog. sect. D 54 (1998) 905-921
36. Hiraishi A. Transfer of the bacteriochlorophyll b-containing phototrophic bacteria Rhodopseudomonas viridis and Rhodopseudomonas sulfoviridis to the genus Blastochloris gen nov. Int. J. Syst. Bacteriol. 47 (1997) 217-219
37. Brünger A.T. Free R-value - a novel statistical quantity for assessing the accuracy of crystal structures. Nature 355 (1992) 472-475
38. Luzzati P.V. Traitement statistique des erreurs dans la determination des structures cristallines. Acta Crystallog. 5 (1952) 802-810
39. Engh R.A., and Huber R. Accurate bond and angle parameters for X-ray protein structure refinement. Acta Crystallog. sect. A 47 (1991) 392-400