Structure of a thermophilic F1-ATPase inhibited by an ε-subunit: Deeper insight into the ε-inhibition mechanism

FEBS Journal

Volumn 282, Issue 15, 2015, Pages 2895-2913

  Shirakihara, Yasuo ^a   Shiratori, Aya ^a   Tanikawa, Hiromi ^a   Nakasako, Masayoshi ^b,e   Yoshida, Masasuke ^c,d,f   Suzuki, Toshiharu ^b,c,d  

^a NATIONAL INSTITUTE OF GENETICS   (Japan)

^b UNIVERSITY OF TOKYO   (Japan)

^c TOKYO INSTITUTE OF TECHNOLOGY   (Japan)

^d JAPAN SCIENCE AND TECHNOLOGY AGENCY   (Japan)

^e KEIO UNIVERSITY   (Japan)

^f KYOTO SANGYO UNIVERSITY   (Japan)

Author keywords

F1 from thermophilic bacterium; F1 ATPase; second catch; inhibition; subunit

Indexed keywords

PROTON TRANSPORTING ADENOSINE TRIPHOSPHATE SYNTHASE; PROTON TRANSPORTING ADENOSINE TRIPHOSPHATASE;

AMINO TERMINAL SEQUENCE; ANALYTIC METHOD; ARTICLE; BETA CHAIN; CARBOXY TERMINAL SEQUENCE; CRYSTALLIZATION; ENZYME CONFORMATION; ENZYME INHIBITION; ENZYME STRUCTURE; ESCHERICHIA COLI; NONHUMAN; PRIORITY JOURNAL; PROTEIN INTERACTION; X RAY; ANTAGONISTS AND INHIBITORS; CHEMICAL STRUCTURE; CHEMISTRY; ENZYME ACTIVE SITE; ENZYMOLOGY; METABOLISM; PROTEIN CONFORMATION; X RAY CRYSTALLOGRAPHY;

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI;

CATALYTIC DOMAIN; CRYSTALLIZATION; CRYSTALLOGRAPHY, X-RAY; ESCHERICHIA COLI; MODELS, MOLECULAR; PROTEIN CONFORMATION; PROTON-TRANSLOCATING ATPASES;

EID: 84938198507     PISSN: 1742464X     EISSN: 17424658     Source Type: Journal    
DOI: 10.1111/febs.13329     Document Type: Article

References (55)

1. Boyer PD, (1997) The ATP synthase-a splendid molecular machine. Annu Rev Biochem 66, 717-749.
2. 1-ATPase. Biochim Biophys Acta 1319, 19-58.
3. Yoshida M, Muneyuki E, &, Hisabori T, (2001) ATP synthase-a marvelous rotary engine of the cell. Nat Rev Mol Cell Biol 2, 669-677.
4. Yoshida M, Sone N, Hirata H, &, Kagawa Y, (1975) A highly stable adenosine triphosphatase from a thermophilic bacterium. J Biol Chem 250, 7910-7916.
5. 1-ATPase from bovine heart mitochondria. Nature 370, 621-628.
6. Noji H, Yasuda R, Yoshida M, Kinoshita KJ, Noji H, Yasuda R, Yoshida M, &, Kinoshita KJ, (1997) Nature 386, 299-302.
7. 1-ATPase from bovine heart mitochondria at 1.9 Å resolution. J Biol Chem 282, 14238-14242.
8. 1 ATPase. EMBO J 25, 5433-5442.
9. 1c10-ATP synthase. J Biol Chem 285, 29502-29510.
10. 1 ATPase. J Biol Chem 276, 47227-47232.
11. 1ATPase with nucleotide bound to all three catalytic sites: implications for the mechanism of rotary catalysis. Cell 106, 331-341.
12. 1) from Escherichia coli in an autoinhibited conformation. Nat Struct Mol Biol 18, 701-708.
13. 1-ATPase. Structure 15, 904-914.
14. 1-ATPase from bovine mitochondria. Proc Natl Acad Sci USA 104, 15671-15676.
15. 1-ATP synthase. Biochim Biophys Acta 1757, 326-338.
16. 1-ATPase probed by single-molecule manipulation. J Biol Chem 285, 11441-11447.
17. Wilkens S, Dahlquist FW, Mcintosh LP, Donaldson LW, &, Capaldi RA, (1995) Structural features of the Escherichia coli ε subunit of the ATPsynthase determined by NMR spectroscopy. Nat Struct Biol 2, 961-967.
18. Uhlin U, Cox GB, &, Guss JM, (1997) Crystal structure of the ε subunit of the proton-translocating ATP synthase from Escherichia coli. Structure 5, 1219-1230.
19. 1. Proc Natl Acad Sci USA 104, 11233-11238.
20. 1-ATPase. J Biol Chem 275, 35746-35750.
21. 1-ATPase/Synthase is geared to the synthesis mode by conformational rearrangement of ε subunit in response to proton motive force and ATP/ADP balance. J Biol Chem 278, 46840-46846.
22. 1-ATPase - Structural implications and functional consequences. J Biol Chem 270, 9185-9191.
23. 1-type ATPase. J Biol Chem 271, 13888-13891.
24. 1 ATP synthase provide a ratchet action to regulate this rotary motor enzyme. Proc Natl Acad Sci USA 98, 6560-6564.
25. 1-ATPase from the thermophilic bacteirum, PS3. J Biol Chem 261, 5714-5721.
26. o b subunit prevents ATP hydrolysis. J Biol Chem 275, 37902-37906.
27. 1-ATPase from the thermophilic Bacillus PS3 is a symmetric trimer. Structure 5, 825-836.
28. 1 in the Absence of bound nuleotides. J Biol Chem 284, 10546-10551.
29. 1-ATPase. J Biol Chem 275, 14260-142633.
30. 1-ATPase: propagation of the inhibitory effect of the ε subunit. J Biol Chem 276, 23969-23973.
31. 1-ATPase at 2.4-Å resolution. Nat Struct Biol 7, 1055-1061.
32. 1-ATPase is activated without dissociation of an endogenous inhibitor, ε subunit. J Biol Chem 272, 24906-24912.
33. 1-ATPase. Arch Biochem Biophys 197, 83-89.
34. 1-ATPase rotational catalysis by the carboxyl-terminal domain of the ε subunit. J Biol Chem 289, 30822-30831.
35. 1 rotation. J Biol Chem 285, 42058-42067.
36. Doublie S, &, Carter CW Jr, (1992) Preparation of selenomethionyl protein crystals. In Crystallization of Nucleic Acids and Proteins. A Pracitical Approach (, Ducruix A, &, Giegg R, eds), pp. 311-317. Oxford University Press, Oxford, UK.
37. 1-ATPase from the thermophilic Bacterium PS3 is accelerated by the chase-addition of excess ATP. J Biol Chem 267, 4551-4556.
38. Riboldi Tunnicliffe A, &, Higenfeld R, (1999) Cryocrystallography with oil-an old idea revived. J Appl Crystallogr 32, 1003-1005.
39. Otwinowski Z, &, Minor W, (1997) Processing of X-ray diffraction data collected in oscillation mode. Methods Enzymol 276, 307-326.
40. Collaborative Computational Project Number 4 (1994) The CCP4 suite: programs for Protein Crystallography. Acta Crystallogr D 50, 760-763.
41. Leslie AGW, &, Powell HR, (2007) Processing diffraction data with Mosflm. Evol Methods Macromol Crystallogr. Springer 245, 41-51.
42. Evans PR, (2006) Evolving methods for macromolecular crystallography. Acta Crystallogr D 62, 72-82.
43. Tong L, &, Rossman MG, (1997) Rotation function calculations with GLRF program. Methods Enzymol 276, 594-611.
44. Brunger AT, (1992) XPLOR Version 3.1 Manual. Yale University Press, New Haven, CT.
45. Leslie AGW, &, Wonacott AJ, (1984) Structural evidence for ligand-induced sequential conformational changes in glyceraldehyde 3-phosphate dehydrogenase. J Mol Biol 176, 743-772.
46. Rodgers AJ, &, Wilce MC, (2000) Structure of the γ-ε complex of ATP synthase. Nat Struct Biol 7, 1051-1054.
47. Brunger AT, Adams PD, Clore GM, Gros P, Grosse-Kunstleve RW, Jiang JS, Kuszewski N, Nilges N, Pannu NS, Read RJ, et al,. (1998) Crystallography & NMR system: a new software suite for macromolecular structure determination. Acta Crystallogr D 54, 905-921.
48. Bricogne G, Vonrhein C, Flensburg C, Schiltz M, &, Paciorek W, (2003) Generation, representation and flow of phase information in structure determination: recent developments in and around SHARP 2.0. Acta Crystallogr D 59, 2023-2030.
49. Adams PD, Grosse-Kunstleve RW, Hung LW, Ioerger TR, McCoy AJ, Moriarty NW, Read RJ, Sacchettini JC, Sauter NK, &, Terwilliger TC, (2002) PHENIX; building new software for automated crystallographic structure determination. Acta Crystallogr D 58, 1948-1954.
50. Urzhumtseva L, Afonine PV, Adams PD, &, Urzhumtsev A, (2009) Crystallographic model quality at a glance. Acta Crystallogr D 65, 297-300.
51. Laskowski RA, MacArthur MW, Moss D, &, Thornton JM, (1993) PROCHECK-a program to check the stereochemical quality of protein structures. J Appl Crystallogr 26, 283-291.
52. Krissinel E, &, Henrick K, (2007) Inference of macromolecular assemblies from crystalline state. J Mol Biol 372, 774-797.
53. Esnouf RM, (1997) An extensively modified version of Molscript that includes greatly enhanced coloring capabilities. J Mol Graph Model 5, 132-134.
54. Kraulis PJ, (1991) MOLSCRIPT: a program to produce both detailed and schematic structures. J Appl Crystallogr 24, 946-950.
55. Jones TA, Zou JY, Cowan SW, &, Kjeldgaard M, (1991) Improved methods for building protein models in electron density maps and the location of errors in these models. Acta Crystallogr A 47, 110-119.