Application of rigid body mechanics to theoretical description of rotation within F0F1-ATP synthase

Journal of Theoretical Biology

Volumn 242, Issue 2, 2006, Pages 300-308

  Nartsissov, Yaroslav R ^a   Mashkovtseva, Elena V ^a  

^a Institute of Cytochemistry and Molecular Pharmacology   (Russian Federation)

Author keywords

ATP synthase; Mathematical model; Rotation

Indexed keywords

ADENOSINE DIPHOSPHATE; ADENOSINE TRIPHOSPHATE; PROTON TRANSPORTING ADENOSINE TRIPHOSPHATE SYNTHASE;

AMINO ACID; CATALYSIS; PROTEIN; VISCOSITY;

ARTICLE; CATALYSIS; ELASTICITY; ELECTRIC POTENTIAL; ENERGY; ENZYME ACTIVITY; ENZYME STRUCTURE; ISOENZYME ANALYSIS; MEMBRANE TRANSPORT; PHYSICAL CHEMISTRY; PRIORITY JOURNAL; PROTEIN TRANSPORT; PROTON TRANSPORT; THEORETICAL MODEL; VISCOSITY;

ADENOSINE TRIPHOSPHATE; BIOMECHANICS; CHEMISTRY, PHYSICAL; MODELS, CHEMICAL; PHYSICOCHEMICAL PHENOMENA; PROTON-MOTIVE FORCE; PROTON-TRANSLOCATING ATPASES; ROTATION;

EID: 33747186390     PISSN: 00225193     EISSN: 10958541     Source Type: Journal    
DOI: 10.1016/j.jtbi.2006.02.018     Document Type: Article

References (47)

1. 1-ATPase from bovine heart mitochondria. Nature 370 (1994) 621-628
2. 0 sector of ATP synthase. Biophys. J. 86 (2004) 1332-1344
3. 0: its time-averaged single-channel conductance as a function of pH, temperature, isotopic and ionic medium composition. J. Membr. Biol. 108 (1989) 263-271
4. Boyer P.D. The ATP synthase-a splendid molecular machine. Annu. Rev. Biochem. 66 (1997) 717-749
5. Burbenskaya N.M., Nartsissov Ya.R., Tsofina L.M., and Komissarova I.A. The uncoupling effect of some psychotropic drugs on oxidative phosphorylation in rat liver mitochondria. Biochem. Mol. Biol. Int. 45 (1998) 261-268
6. 0. Cell Biochem. Biophys. 34 (2001) 305-320
7. Cherepanov D.A., and Junge W. Viscoelastic dynamics of actin filaments coupled to rotary F-ATPase: curvature as an indicator of the torque. Biophys. J. 81 (2001) 1234-1244
8. Cherepanov D.A., Mulkidjanian A.Y., and Junge W. Transient accumulation of elastic energy in proton translocating ATP synthase. FEBS Lett. 449 (1999) 1-6
9. Chou K.-C. Insights from modeling three-dimensional structures of the human potassium and sodium channels. J. Proteome Res. 3 4 (2004) 856-861
10. Cross R.L. The rotary binding change mechanism of ATP synthases. Biochim. Biophys. Acta 1458 (2000) 270-275
11. Das A.M. Regulation of the mitochondrial ATP-synthase in health and disease. Mol. Genet. Metab. 79 (2003) 71-82
12. Decoursey T.E. Voltage-gated proton channels and other proton transfer pathways. Physiol. Rev. 83 (2003) 475-579
13. 1 in goat heart. Biochim. Biophys. Acta 1659 (2004) 52-62
14. Dimroth P., Wang H., Grabe M., and Oster G. Energy transduction in the sodium F-ATPase of Propionigenium modestum. Proc. Natl Acad. Sci. USA 96 (1999) 4924-4929
15. 0 complex of E. coli ATP synthase from isolated subunits: varying the number of essential carboxylates by co-incorporation of wild-type and mutant subunit c after purification in organic solvent. Eur. J. Biochem. 233 (1995) 478-485
16. 0 ATP synthase: model derived from solution structure of the monomer and cross-linking in the native enzyme. Proc. Natl Acad. Sci. USA 96 (1999) 7785-7790
17. Elston T., Wang H.Y., and Oster G. Energy transduction in ATP synthase. Nature 391 (1998) 510-513
18. Engelbrecht S., and Junge W. ATP synthase: a tentative structural model. FEBS Lett. 414 (1997) 485-491
19. 1 ATP synthase for ATP synthesis in membrane vesicles. Eur. J. Biochem. 243 (1997) 336-343
20. 1-ATPase. Nat. Struct. Biol. 7 (2000) 1002-1004
21. 0 ATP synthase. Biochim. Biophys. Acta 1458 (2000) 387-403
22. 1-ATPase at 2.4 Å resolution. Nat. Struct. Biol. 7 (2000) 1055-1061
23. 0 ATP synthase. Biochemistry 37 (1998) 8817-8824
24. 1-ATPase at 3.2 Å resolution. J. Biol. Chem. 276 (2001) 1345-1352
25. Groth G., and Walker J. Model of the c-cubunit oligomer in the membrane of F-ATPase. FEBS Lett. 410 (1997) 117-123
26. 1-ATPase can rotate in a unidirectional and counter-clockwise manner. FEBS Lett. 463 (1999) 35-38
27. 1 ATP synthase from the cross-linking of subunits b and c in the E. coli enzyme. J. Biol. Chem. 275 (2000) 31340-31346
28. Junge W. Protons, the thylakoid membrane, and the chloroplast ATP synthase. Ann. NY Acad. Sci. 574 (1989) 268-286
29. Kojima H., Ishijima A., and Yanagida T. Direct measurement of stiffness of single actin filaments with and without tropomyosin by in vitro nanomanipulation. Proc. Natl Acad. Sci. USA 91 (1994) 12962-12966
30. 0 is active with a high unit conductance (169 fS). Eur. J. Biochem. 160 (1986) 627-634
31. Lill H., Althoff G., and Junge G. Analysis of ionic channels by a flash spectrophotometric technique applicable to thylakoid membranes: d and for comparison, gramicidin. J. Membr. Biol. 98 (1987) 69-78
32. Marrink S.J., Jahnig F., and Berendsen H.J. Proton transport across transient single-file water pores in a lipid membrane studied by molecular dynamics simulations. Biophys. J. 71 (1996) 632-647
33. Nelson P. Biological Physics. Energy, Information, Life (2004), W.H. Freeman and Company, New York (598pp.)
34. Noji H., and Yoshida M. The rotary machine in the cell, ATP synthase. J. Biol. Chem. 276 (2001) 1665-1668
35. 1-ATPase. Nature 386 (1997) 299-302
36. Oxenoid K., and Chou J.J. The structure of phospholamban pentamer reveals a channel-like architecture in membranes. Proc. Natl Acad. Sci. USA 102 (2005) 10870-10875
37. Rastogi V.K., and Girvin M.E. Structural changes linked to proton translocation by subunit c of the ATP synthase. Nature 402 (1999) 263-268
38. Schlick T. Molecular Modeling and simulation. An Interdisciplinary Guide (2002), Springer, New York (634pp.)
39. 0 is greater than 10 fS. FEBS Lett. 203 (1986) 289-294
40. Seelert H., Poetsch A., Dencher N.A., Engel A., Stahlberg H., and Muller D.J. Proton-powered turbine of a plant motor. Nature 405 (2000) 418-419
41. Stock D., Leslie A.G.W., and Walker J.E. Molecular architecture of the rotary motor in ATP synthase. Science 286 (1999) 36-40
42. Stock D., Gibbons C., Arechaga I., Leslie A.G.W., and Walker J.E. Rotary mechanism of ATP synthase. Curr. Opin. Struct. Biol. 10 (2000) 672-679
43. 1-ATP synthase. J. Biol. Chem. 273 (1998) 16241-16247
44. Walker J.E. ATP synthesis by rotary catalysis (Nobel lecture). Angew. Chem. Int. Edn. Engl. 37 (1998) 2309-2319
45. Wang J., Schnell J.R., and Chou J.J. Amantadine partition and localization in phospholipid membrane: a solution NMR study. Biochem. Biophys. Res. Commun. 324 (2004) 212-217
46. 1-ATPase is a highly efficient molecular motor that rotates with discrete 120° steps. Cell 93 (1998) 1117-1124
47. Yasuda R.H., Noji M., Yoshida K., Kinosita Jr., and Itoh H. Resolution of distinct rotational substeps by submillisecond kinetic analysis of F1-ATPase. Nature 410 (2001) 898-904