A site-directed cross-linking approach to the characterization of subunit E-subunit G contacts in the vacuolar H⁺-ATPase stator

References

• Bernal RA, Stock D. 2004. Three-dimensional structure of the intact Thermus thermophilus H+-ATPase/synthase by electron microscopy. Structure 12:1789–1798.
   Google Scholar
• Biukovic G, Rossle M, Gayen S, Mu Y, Grüber G. 2007. Small-angle X-ray scattering reveals the solution structure of the peripheral stalk subunit H of the A1A0 ATP synthase from Methanocaldococcus jannaschii and its binding to the catalytic A subunit. Biochemistry 46:2070–2078.
   PubMedGoogle Scholar
• Cuff JA, Clamp ME, Siddiqui AS, Finlay M, Barton GJ. 1998. JPred: A consensus secondary structure prediction server. Bioinformatics, 14, 892–3.
   PubMed Web of Science ®Google Scholar
• Diepholz M, Venzke D, Prinz S, Batisse C, Flörchinger B, Rössle M, Svergun DI, Böttcher B, Féthière J. 2008. A different conformation for EGC stator subcomplex in solution and in the assembled yeast V-ATPase: Possible implications for regulatory disassembly. Structure 16:1789–1798.
   Google Scholar
• Drory O, Frolow F, Nelson N. 2004. Crystal structure of yeast V-ATPase subunit C reveals its stator function. EMBO Reports 5:1148–1152.
   PubMed Web of Science ®Google Scholar
• Féthière J, Venzke D, Diepholz M, Seybert A, Geerlof A, Gentzel M, Wilm M, Böttcher B. 2004. Building the stator of the yeast vacuolar-ATPase: Specific interaction between subunits E and G. J Biol Chem 279:40670–40676.
   PubMedGoogle Scholar
• Féthière J, Venzke D, Madden DR, Böttcher B. 2005. Peripheral stator of the yeast V-ATPase: Stoichiometry and specificity of interaction between the EG complex and subunits C and H. Biochemistry 44:15906–15914.
   PubMedGoogle Scholar
• Forgac M. 2007. Vacuolar ATPases: Rotary proton pumps in physiology and pathophysiology. Nat Rev Mol Cell Biol 8:917–929.
   PubMed Web of Science ®Google Scholar
• Gayen S, Balakrishna AM, Biukovic G, Yulei W, Hunke C, Grüber G. 2008. Identification of critical residues of subunit H in its interaction with subunit E of the A-ATP synthase from Methanocaldococcus jannaschii. FEBS J 275:1803–1812.
   PubMedGoogle Scholar
• Gayen S, Balakrishna AM, Grüber G. 2009. NMR solution structure of the N-terminal domain of subunit E (E1-52) of A1A0 ATP synthase from Methanocaldococcus jannaschii. J Bioenerg Biomemb 41:343–348.
   PubMedGoogle Scholar
• Green NS, Reisler E, Houk KN. 2008. Quantitative evalutation of the lengths of homobifunctional protein cross-linking reagents used as molecular rulers. Protein Sci 10:1293–1304.
   Google Scholar
• Harrison MA, Durose L, Song CF, Barratt E, Trinick J, Jones R, Findlay JBC. 2003. Structure and function of the vacuolar H+-ATPase: Moving from low resolution models to high resolution structures. J Bioenerg Biomemb 35:337–345.
   PubMedGoogle Scholar
• Harrison MA, Powell B, Finbow ME, Findlay JBC. 2000. Identification of lipid-accessible sites on the Nephrops 16-kDa proteolipid incorporated into a hybrid vacuolar H+-ATPase: Site-directed labeling with N-(1-pyrenyl)cyclohexylcarbodiimide and fluorescence quenching analysis. Biochemistry 39:7531–7537.
   PubMedGoogle Scholar
• Hayes D, Laue T, Philo J. 1995. Program Sednterp: Sedimentation interpretation program. PhD thesis, University of New Hampshire, USA.
   Google Scholar
• Inoue T, Forgac M. 2005. Cysteine-mediated cross-linking indicates that subunit C of the V-ATPase is in close proximity to subunits E and G of the V1 domain and subunit a of the V0 domain. J Biol Chem 280:27896–27903.
   PubMed Web of Science ®Google Scholar
• Jones RPO, Durose LJ, Findlay JBC, Harrison MA. 2005. Defined sites of interaction between subunits E (Vma4p), C (Vma5p), and G (Vma10p) within the stator structure of the vacuolar H+-ATPase. Biochemistry 44:3933–3941.
   PubMedGoogle Scholar
• Jones RPO, Hunt IE, Jaeger J, Ward A, O'Reilly J, Barratt EA, Findlay JBC, Harrison MA. 2001. Expression, purification and secondary structure analysis of Saccharomyces cerevisiae vacuolar membrane H+-ATPase subunit F (Vma7p). Mol Memb Biol 18:283–290.
   PubMedGoogle Scholar
• Kish-Trier E, Briere LA, Dunn SD, Wilkens S. 2008. The stator complex of the A1A0-ATP synthase – structural characterization of the E and H subunits. J Mol Biol 375:673–685.
   PubMedGoogle Scholar
• Kish-Trier E, Wilkens S. 2009. Domain architecture of the stator complex of the A1A0-ATP synthase from Thermoplasma acidophilum. J Biol Chem 284:12031–12040.
   PubMedGoogle Scholar
• Kitagawa N, Mazon H, Heck AJR, Wilkens S. 2008. Stoichiometry of the peripheral stalk subunits E and G of yeast V1-ATPase determined by mass spectrometry. J Biol Chem 283:3329–3337.
   Google Scholar
• Landolt-Marticorena C, Williams KM, Correa J, Chen W, Manolson MF. 2000. Evidence that the NH2 terminus of Vph1p, an integral subunit of the V0 sector of the yeast V-ATPase, interacts directly with the Vma1p and Vma13p subunits of the V1 sector. J Biol Chem 275:15449–15457.
   PubMedGoogle Scholar
• Landt O, Grunert H-P, Hahn U. 1990. A general method for rapid site-directed mutagenesis using the polymerase chain reaction. Gene 96:125–128.
   PubMed Web of Science ®Google Scholar
• Lokanath NK, Matsuura Y, Kuroishi C, Takahashi N, Kunishima N. 2007. Dimeric core structure of modular stator subunit E of archaeal H+-ATPase. J Mol Biol 366:933–944.
   PubMedGoogle Scholar
• Lu M, Vergara S, Zhang L, Holliday LS, Aris J, Gluck SL. 2002. The amino-terminal domain of the E subunit of vacuolar H+-ATPase (V-ATPase) interacts with the H subunit and is required for V-ATPase function. J Biol Chem 277:38409–38415.
   PubMed Web of Science ®Google Scholar
• Muench SP, Huss M, Song CF, Phillips C, Wieczorek H, Trinick J, Harrison MA. 2009. Cryo-electron microscopy of the vacuolar ATPase motor reveals its mechanical and regulatory complexity. J Mol Biol 386:389–399.
   Google Scholar
• Murata T, Yamato I, Kakinuma Y, Leslie AGW, Walker JE. 2005. Structure of the rotor of the V-type Na+-ATPase from Enterococcus hirae. Science 308:654–659.
   PubMedGoogle Scholar
• Nelson H, Nelson N. 1990. Disruption of genes encoding subunits of yeast vacuolar H+-ATPase causes conditional lethality. Proc Natl Acad Sci USA 87:3503–3507.
   PubMedGoogle Scholar
• Nishi T, Forgac M. 2002. The vacuolar (H+)-ATPases – nature's most versatile proton pumps. Nature Rev Mol Cell Biol 3:94–103.
   PubMed Web of Science ®Google Scholar
• Pospiech A, Neumann B. 1995. A versatile quick-prep of genomic DNA from Gram-positive bacteria. Trends Genet 11:217–218.
   PubMed Web of Science ®Google Scholar
• Provencher SW, Glöckner J. 1981. Estimation of globular protein secondary structure from circular dichroism. Biochemistry 20:33–37.
   PubMed Web of Science ®Google Scholar
• Qi J, Forgac M. 2008. Function and subunit interactions of the N-terminal domain of subunit a (Vph1p) of the yeast V-ATPase. J Biol Chem 283:19274–19282.
   PubMedGoogle Scholar
• Rishikesan S, Thaker YR, Priya R, Gayen S, Manimekalai MSS, Hunke C, Grüber G. 2008. Spectroscopical identification of residues of subunit G of the yeast V-ATPase in its connection with subunit E. Mol Memb Biol 25:400–410.
   PubMed Web of Science ®Google Scholar
• Rubinstein JL, Walker JE, Henderson R. 2003. Structure of the mitochondrial ATP synthase by electron cryomicroscopy. EMBO J 22:6182–6192.
   PubMed Web of Science ®Google Scholar
• Schuck P. 2000. Size-distribution analysis of macromolecules by sedimentation velocity ultracentrifugation and Lamm equation modelling. Biophys J 78:1606–1619.
   PubMed Web of Science ®Google Scholar
• Stafford WF. 1992. Boundary analysis in sedimentation transport experiments: A procedure for obtaining sedimentation coefficient distributions using the time derivative of the concentration profile. Anal Biochem 203:1–7.
   PubMedGoogle Scholar
• Uchida E, Ohsumi Y, Anraku Y. 1985. Purification and properties of H+-translocating Mg2+-adenosine triphosphatase from vacuolar membranes of Saccharomyces cerevisiae. J Biol Chem 260:1090–1095.
   PubMed Web of Science ®Google Scholar
• Vonck J, Pisa KY, Morgner N, Brutschy B, Müller V. 2009. Three-dimensional structure of A1A0ATP synthase from the hyperthermophilic archeon Pyrococcus furiosus by electron microscopy. J Biol Chem 284:10110–10119.
   PubMedGoogle Scholar
• Yamamoto M, Unzai S, Saijo S, Ito K, Mizutani K, Suno-Ikeda C, Yabuki-Miyata Y, Terada T, Toyama M, Shirouzu M, Kobayashi T, Kakinuma Y, Yamato I, Yokoyama S, Iwata S, Murata T. 2008. Interaction and stoichiometry of the peripheral stalk subunits NtpE and NtpF and the N-terminal hydrophilic domain of NtpI of Enterococcus hirae V-ATPase. J Biol Chem 283:19422–19431.
   PubMedGoogle Scholar
• Yokoyama K, Nakano M, Imamura H, Yoshida M, Tamakoshi M. 2003. Rotation of the proteolipid ring in the V-ATPase. J Biol Chem 278:24255.
   PubMed Web of Science ®Google Scholar
• Zhang Z, Zheng Y, Mazon H, Milgrom E, Kitagawa N, Kish-Trier E, Heck AJR, Kane PM, Wilkens S. 2008. Structure of the yeast vacuolar ATPase. J Biol Chem 283:35983–35995.
   PubMed Web of Science ®Google Scholar