Conserved arginine residues implicated in ATP hydrolysis, nucleotide-sensing, and inter-subunit interactions in AAA and AAA+ ATPases

Journal of Structural Biology

Volumn 146, Issue 1-2, 2004, Pages 106-112

  Ogura, Teru ^a   Whiteheart, Sidney W ^b   Wilkinson, Anthony J ^c  

^a KUMAMOTO UNIVERSITY   (Japan)

^b UNIVERSITY OF KENTUCKY   (United States)

^c UNIVERSITY OF YORK   (United Kingdom)

Author keywords

AAA family; ATP hydrolysis; ATPase; Inter subunit interactions

Indexed keywords

ADENOSINE TRIPHOSPHATE; ARGININE; NUCLEOTIDE;

ANALYTIC METHOD; COMPARATIVE STUDY; CONFERENCE PAPER; ENZYME ACTIVE SITE; HYDROLYSIS; NONHUMAN; NUCLEOTIDE BINDING SITE; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN FUNCTION; PROTEIN PROTEIN INTERACTION; PROTEIN STRUCTURE; STRUCTURE ANALYSIS;

ADENOSINE TRIPHOSPHATASES; ADENOSINE TRIPHOSPHATE; ARGININE; BINDING SITES; CONSERVED SEQUENCE; PROTEIN STRUCTURE, QUATERNARY;

EID: 1642377971     PISSN: 10478477     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jsb.2003.11.008     Document Type: Conference Paper

References (35)

1. Beuron F., Flynn T.C., Ma J., Kondo H., Zhang X., Freemont P.S. Motions and negative cooperativity between p97 domains revealed by cryo-electron microscopy and quantised elastic deformational model. J. Mol. Biol. 327:2003;619-629.
2. Davey M.J., Indiani C., O'Donnell M. Reconstitution of the Mcm2-7p heterohexamer, subunit arrangement, and ATP site architecture. J. Biol. Chem. 278:2003;4491-4499.
3. DeLaBarre B., Brunger A.T. Complete structure of p97/valosin-containing protein reveals communication between nucleotide domains. Nat. Struct. Biol. 10:2003;856-863.
4. Guenther B., Onrust R., Sali A., O'Donnell M., Kuriyan J. Crystal structure of the. δ′ subunit of the clamp-loader complex of E. coli DNA polymerase III Cell. 91:1997;335-345.
5. + hexamers. Proc. Natl. Acad. Sci. USA. 99:2002;13944-13949.
6. Hattendorf D.A., Lindquist S.L. Analysis of the AAA sensor-2 motif in the C-terminal ATPase domain of Hsp104 with a site-specific fluorescent probe of nucleotide binding. Proc. Natl. Acad. Sci. USA. 99:2002;2732-2737.
7. + class helicase and motor protein for Holliday junction branch migration. Mol. Microbiol. 36:2000;528-538.
8. + machine. J. Biol. Chem. 278:2003;14406-14413.
9. Karata K., Inagawa T., Wilkinson A.J., Tatsuta T., Ogura T. Dissecting the role of a conserved motif (the second region of homology) in the AAA family of ATPases: site-directed mutagenesis of the ATP-dependent protease FtsH. J. Biol. Chem. 274:1999;26225-26232.
10. Karata K., Verma C.S., Wilkinson A.J., Ogura T. Probing the mechanism of ATP hydrolysis and substrate translocation in the AAA protease FtsH by modelling and mutagenesis. Mol. Microbiol. 39:2001;890-903.
11. Kawasaki F., Mattiuz A.M., Ordway R.W. Synaptic physiology and ultrastructure in comatose mutants define an in vivo role for NSF in neurotransmitter release. J. Neurosci. 18:1998;10241-10249.
12. Kraulis P.J. MOLSCRIPT: a program to produce both detailed and schematic plots of protein structure. J. Appl. Crystallogr. 24:1991;946-950.
13. Krzywda S., Brzozowski A.M., Verma C., Karata K., Ogura T., Wilkinson A.J. The crystal structure of the AAA domain of the ATP-dependent protease FtsH of Escherichia coli at 1.5. Å resolution Structure (Camb). 10:2002;1073-1083.
14. 54 -dependent enhancer-binding protein J. Biol. Chem. 277:2002;41517-41524.
15. Lupas A., Flanagan J.M., Tamura T., Baumeister W. Self- compartmentalizing proteases. Trends Biochem. Sci. 22:1997;399-404.
16. Lupas A.N., Martin J. AAA proteins. Curr. Opin. Struct. Biol. 12:2002;746-753.
17. Matveeva E.A., May A.P., He P., Whiteheart S.W. Uncoupling the ATPase activity of the. N -ethylmaleimide sensitive factor (NSF) from 20S complex disassembly Biochemistry. 41:2002;530-536.
18. Müller C.W., Schulz G.E. Structure of the complex between adenylate kinase from Escherichia coli and the inhibitor Ap5A refined at 1.9. Å resolution. A model for a catalytic transition state J. Mol. Biol. 224:1992;159-177.
19. +: a class of chaperone-like ATPases associated with the assembly, operation, and disassembly of protein complexes. Genome Res. 9:1999;27-43.
20. Nishida S., Fujimitsu K., Sekimizu K., Ohmura T., Ueda T., Katayama T. A nucleotide switch in the Escherichia coli DnaA protein initiates chromosomal replication: evidence from a mutant DnaA protein defective in regulatory ATP hydrolysis in vitro and in vivo. J. Biol. Chem. 277:2002;14986-14995.
21. + superfamily ATPases: common structure-diverse function. Genes Cells. 6:2001;575-597.
22. 54 -dependent activator XylR triggers a protein multimerization cycle catalyzed by UAS DNA Cell. 86:1996;331-339.
23. Putnam C.D., Clancy S.B., Tsuruta H., Gonzalez S., Wetmur J.G., Tainer J.A. Structure and mechanism of the RuvB Holliday junction branch migration motor. J. Mol. Biol. 311:2001;297-310.
24. Rombel I., Peters-Wendisch P., Mesecar A., Thorgeirsson T., Shin Y.K., Kustu S. MgATP binding and hydrolysis determinants of NtrC, a bacterial enhancer-binding protein. J. Bacteriol. 181:1999;4628-4638.
25. Rouiller I., DeLaBarre B., May A.P., Weis W.I., Brunger A.T., Milligan R.A., Wilson-Kubalek E.M. Conformational changes of the multifunction p97 AAA ATPase during its ATPase cycle. Nat. Struct. Biol. 9:2002;950-957.
26. Schepers A., Diffley J.F. Mutational analysis of conserved sequence motifs in the budding yeast Cdc6 protein. J. Mol. Biol. 308:2001;597-608.
27. Schirmer E.C., Glover J.R., Singer M.A., Lindquist S. HSP100/Clp proteins: a common mechanism explains diverse functions. Trends Biochem. Sci. 21:1996;289-296.
28. Song H.K., Hartmann C., Ramachandran R., Bochtler M., Behrendt R., Moroder L., Huber R. Mutational studies on HslU and its docking mode with HslV. Proc. Natl. Acad. Sci. USA. 97:2000;14103-14108.
29. Sousa M.C., Trame C.B., Tsuruta H., Wilbanks S.M., Reddy V.S., McKay D.B. Crystal and solution structures of anHslUV protease-chaperone complex. Cell. 103:2000;633-643.
30. + Box VIII motif in ATP hydrolysis. Mol. Microbiol. 40:2001;376-386.
31. Takahashi N., Tsutsumi S., Tsuchiya T., Stillman B., Mizushima T. Functions of sensor 1 and sensor 2 regions of Saccharomyces cerevisiae Cdc6p in vivo and in vitro. J. Biol. Chem. 277:2002;16033-16040.
32. 0-ATP synthase. FEBS Lett. 545:2003;61-70.
33. Wikström P., O'Neill E., Ng L.C., Shingler V. The regulatory N-terminal region of the aromatic-responsive transcriptional activator DmpR constrains nucleotide-triggered multimerisation. J. Mol. Biol. 314:2001;971-984.
34. Zhang X., Chaney M., Wigneshweraraj S.R., Schumacher J., Bordes P., Cannon W., Buck M. Mechanochemical ATPases and transcriptional activation. Mol. Microbiol. 45:2002;895-903.
35. Zhang X., Shaw A., Bates P.A., Newman R.H., Gowen B., Orlova E., Gorman M.A., Kondo H., Dokurno P., Lally J., Leonard G., Meyer H., van Heel M., Freemont P.S. Structure of the AAA ATPase p97. Mol. Cell. 6:2000;1473-1484.