Structural and mechanistic studies of VPS4 proteins

EMBO Journal

Volumn 24, Issue 20, 2005, Pages 3658-3669

  Scott, Anna ^a   Chung, Hyo Young ^a   Gonciarz Swiatek, Malgorzata ^a   Hill, Gina C ^a   Whitby, Frank G ^a   Gaspar, Jason ^a   Holton, James M ^b   Viswanathan, Ramya ^a   Ghaffarian, Sanaz ^a   Hill, Christopher P ^a   Sundquist, Wesley I ^a  

^a UNIVERSITY OF UTAH SCHOOL OF MEDICINE   (United States)

^b UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

AAA ATPase; HIV; Vacuolar protein sorting; Virus budding; X ray crystallography

Indexed keywords

ADENOSINE TRIPHOSPHATASE; PROTEIN; PROTEIN VPS4; UNCLASSIFIED DRUG;

AMINO TERMINAL SEQUENCE; ARTICLE; CARBOXY TERMINAL SEQUENCE; CONTROLLED STUDY; CRYSTAL STRUCTURE; CRYSTALLIZATION; GENE INSERTION; GENE MUTATION; HUMAN; HUMAN CELL; HUMAN IMMUNODEFICIENCY VIRUS 1; MOLECULAR MODEL; NONHUMAN; PRIORITY JOURNAL; RECEPTOR BINDING;

ADENOSINE TRIPHOSPHATASES; AMINO ACID SEQUENCE; CARRIER PROTEINS; CRYSTALLOGRAPHY; HIV-1; HUMANS; MOLECULAR SEQUENCE DATA; MUTATION; PROTEIN STRUCTURE, TERTIARY; REPRESSOR PROTEINS; SACCHAROMYCES CEREVISIAE PROTEINS; VESICULAR TRANSPORT PROTEINS;

HUMAN IMMUNODEFICIENCY VIRUS 1;

EID: 27144444327     PISSN: 02614189     EISSN: 14602075     Source Type: Journal    
DOI: 10.1038/sj.emboj.7600818     Document Type: Article

References (51)

1. Babst M, Katzmann D, Estepa-Sabal E, Meerloo T, Emr S (2002) Escrt-III. An endosome-associated heterooligomeric protein complex required for mvb sorting. Dev Cell 3: 271-282
2. Babst M, Sato TK, Banta LM, Emr SD (1997) Endosomal transport function in yeast requires a novel AAA-type ATPase, Vps4p. EMBO J 16: 1820-1831
3. Babst M, Wendland B, Estepa EJ, Emr SD (1998) The Vps4p AAA ATPase regulates membrane association of a Vps protein complex required for normal endosome function. EMBO J 17: 2982-2993
4. Bishop N, Woodman P (2000) ATPase-defective mammalian VPS4 localizes to aberrant endosomes and impairs cholesterol trafficking. Mol Biol Cell 11: 227-239
5. Bowers K, Lottridge J, Helliwell SB, Goldthwaite LM, Luzio JP, Stevens TH (2004) Protein-protein interactions of ESCRT complexes in the yeast Saccharomyces cerevisiae. Traffic 5: 194-210
6. DeLaBarre B, Brunger AT (2005) Nucleotide dependent motion and mechanism of action of p97/VCP. J Mol Biol 347: 437-452
7. Dreveny I, Kondo H, Uchiyama K, Shaw A, Zhang X, Freemont PS (2004) Structural basis of the interaction between the AAA ATPase p97/VCP and its adaptor protein p47. EMBO J 23: 1030-1039
8. Evans PR, Data reduction (1993) Proceedings of CCP4 Study Weekend, 1993, on Data Collection & Processing 114-122
9. Frickey T, Lupas AN (2004) Phylogenetic analysis of AAA proteins. J Struct Biol 146: 2-10
10. Fujita H, Umezuki Y, Imamura K, Ishikawa D, Uchimura S, Nara A, Yoshimori T, Hayashizaki Y, Kawai J, Ishidoh K, Tanaka Y, Himeno M (2004) Mammalian class E Vps proteins, SBP1 and mVps2/CHMP2A, interact with and regulate the function of an AAA-ATPase SKD1/Vps4B. J Cell Sci 117: 2997-3009
11. Furst J, Sutton RB, Chen J, Brunger AT, Grigorieff N (2003) Electron cryomicroscopy structure of N-ethyl maleimide sensitive factor at 11 Å resolution. EMBO J 22: 4365-4374
12. Gai D, Zhao R, Li D, Finkielstein CV, Chen XS (2004) Mechanisms of conformational change for a replicative hexameric helicase of SV40 large tumor antigen. Cell 119: 47-50
13. Garrus JE, von Schwedler UK, Pornillos OW, Morham SG, Zavitz KH, Wang HE, Wettstein DA, Stray KM, Cote M, Rich RL, Myszka DG, Sundquist WI (2001) Tsg101 and the vacuolar protein sorting pathway are essential for HIV-1 budding. Cell 107: 55-65
14. Göttlinger HG, Dorfman T, Sodroski JG, Haseltine WA (1991) Effect of mutations affecting the p6 gag protein on human immunodeficiency virus particle release. Proc Natl Acad Sci USA 88: 3195-3199
15. Gottwein E, Bodem J, Muller B, Schmechel A, Zentgraf H, Krausslich HG (2003) The Mason-Pfizer monkey virus PPPY and PSAP motifs both contribute to virus release. J Virol 77: 9474-9485
16. Gruenberg J, Stenmark H (2004) The biogenesis of multivesicular endosomes. Nat Rev Mol Cell Biol 5: 317-323
17. Holm L, Sander C (1995) Dali: a network tool for protein structure comparison. Trends Biochem Sci 20: 478-480
18. Holton J, Alber T (2004) Automated protein crystal structure determination using ELVES. Proc Natl Acad Sci USA 101: 1537-1542
19. Horwich AL (2004) Chaperoned protein disaggregation - the ClpB ring uses its central channel. Cell 119: 579-581
20. 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 (Part 2): 110-119
21. Karata K, Verma CS, Wilkinson AJ, Ogura T (2001) Probing the mechanism of ATP hydrolysis and substrate translocation in the AAA protease FtsH by modelling and mutagenesis. Mol Microbiol 39: 890-903
22. Katzmann DJ, Odorizzi G, Emr SD (2002) Receptor downregulation and multivesicular-body sorting. Nat Rev Mol Cell Biol 3: 893-905
23. Laskowski RA, MacArthur MW, Moss DS, Thornton JM (1993) PROCHECK: a program to check the sterochemical quality of protein structures. J Appl Crystallogr 26: 283-291
24. Lee S, Sowa ME, Watanabe YH, Sigler PB, Chiu W, Yoshida M, Tsai FT (2003) The structure of ClpB: a molecular chaperone that rescues proteins from an aggregated state. Cell 115: 229-240
25. Leslie AGW, Recent changes to the MOSFLM package for processing film and image plate data (1992) Joint CCP4 + ESF-EAMCB Newsletter on Protein Crystallography, No. 26
26. Lin Y, Kimpler LA, Naismith TV, Lauer JM, Hanson PI (2005) Interaction of the mammalian endosomal sorting complex required for transport (ESCRT) III protein hSnf7-1 with itself, membranes, and the AAA + ATPase SKD1. J Biol Chem 280: 12799-12809
27. Mancini EJ, Kainov DE, Grimes JM, Tuma R, Bamford DH, Stuart DI (2004) Atomic snapshots of an RNA packaging motor reveal conformational changes linking ATP hydrolysis to RNA translocation. Cell 118: 743-755
28. Martin-Serrano J, Yaravoy A, Perez-Caballero D, Bieniasz PD (2003a) Divergent retroviral late-budding domains recruit vacuolar protein sorting factors by using alternative adaptor proteins. Proc Natl Acad Sci USA 100: 12414-12419
29. Martin-Serrano J, Zang T, Bieniasz PD (2003b) Role of ESCRT-I in retroviral budding. J Virol 77: 4794-4804
30. Morita E, Sundquist WI (2004) Retrovirus budding. Annu Rev Cell Dev Biol 20: 395-425
31. Murshudov GN, Vagin AA, Lebedev A, Wilson KS, Dodson EJ (1999) Efficient anisotropic refinement of macromolecular structures using FFT. Acta Crystallogr D 55 (Part 1): 247-255
32. Niwa H, Tsuchiya D, Makyio H, Yoshida M, Morikawa K (2002) Hexameric ring structure of the ATPase domain of the membrane-integrated metalloprotease FtsH from Thermus thermophilus HB8. Structure (Camb) 10: 1415-1423
33. Ogura T, Wilkinson AJ (2001) AAA + superfamily ATPases: common structure - diverse function. Genes Cells 6: 575-597
34. Otwinowski Z (1991) Maximum likelihood refinement of heavy atom parameters. In Isomorphous Replacement and Anomalous Scattering, Wolf W, Evans PR, Leslie AGW (eds) pp 80-86. Warrington, UK: Darsbury Laboratory
35. Scheuring S, Rohricht RA, Schoning-Burkhardt B, Beyer A, Muller S, Abts HF, Kohrer K (2001) Mammalian cells express two VPS4 proteins both of which are involved in intracellular protein trafficking. J Mol Biol 312: 469-480
36. Scott A, Gaspar J, Stuchell-Brereton M, Alam SL, Skalicky JJ, Sundquist WI (2005) Structure and ESCRT-III protein interactions of the MIT domain of human VPS4A. Proc Natl Acad Sci USA (in press)
37. Shehu-Xhilaga M, Ablan S, Demirov DG, Chen C, Montelaro RC, Freed EO (2004) Late domain-dependent inhibition of equine infectious anemia virus budding. J Virol 78: 724-732
38. Shiflett SL, Ward DM, Huynh D, Vaughn MB, Simmons JC, Kaplan J (2004) Characterization of Vta1p, a class E Vps protein in S. cerevisiae. J Biol Chem 279: 10982-10990
39. Siddiqui SM, Sauer RT, Baker TA (2004) Role of the processing pore of the ClpX AAA + ATPase in the recognition and engagement of specific protein substrates. Genes Dev 18: 359-374
40. Song HK, Hartmann C, Ramachandran R, Bochtler M, Behrendt R, Moroder L, Huber R (2000) Mutational studies on HslU and its docking mode with HslV. Proc Natl Acad Sci USA 97: 14103-14108
41. Strack B, Calistri A, Craig S, Popova E, Gottlinger HG (2003) AIP1/ALIX is a binding partner for HIV-1 p6 and EIAV p9 functioning in virus budding. Cell 114: 689-699
42. Terwilliger TC (2002) Automated structure solution, density modification and model building. Acta Crystallogr D 58: 1937-1940
43. von Schwedler UK, Stuchell M, Muller B, Ward DM, Chung HY, Morita E, Wang HE, Davis T, He GP, Cimbora DM, Scott A, Krausslich HG, Kaplan J, Morham SG, Sundquist WI (2003) The protein network of HIV budding. Cell 114: 701-713
44. Wang J, Song JJ, Franklin MC, Kamtekar S, Im YJ, Rho SH, Seong IS, Lee CS, Chung CH, Eom SH (2001) Crystal structures of the HslVU peptidase-ATPase complex reveal an ATP-dependent proteolysis mechanism. Structure (Camb) 9: 177-184
45. Wang Q, Song C, Li CC (2003) Hexamerization of p97-VCP is promoted by ATP binding to the D1 domain and required for ATPase and biological activities. Biochem Biophys Res Commun 300: 253-260
46. Ward DM, Vaughn MB, Shiflett SL, White PL, Pollock AL, Hill J, Schnegelberger R, Sundquist WI, Kaplan J (2005) The role of LIP5 and CHMP5 in multivesicular body formation and HIV-1 budding in mammalian cells. J Biol Chem 280: 10548-10555
47. Weibezahn J, Tessarz P, Schlieker C, Zahn R, Maglica Z, Lee S, Zentgraf H, Weber-Ban EU, Dougan DA, Tsai FT, Mogk A, Bukau B (2004) Thermotolerance requires refolding of aggregated proteins by substrate translocation through the central pore of ClpB. Cell 119: 653-665
48. Yamada-Inagawa T, Okuno T, Karata K, Yamanaka K, Ogura T (2003) Conserved pore residues in the AAA protease FtsH are important for proteolysis and its coupling to ATP hydrolysis. J Biol Chem 278: 50182-50187
49. Yeo SC, Xu L, Ren J, Boulton VJ, Wagle MD, Liu C, Ren G, Wong P, Zahn R, Sasajala P, Yang H, Piper RC, Munn AL (2003) Vps20p and Vtalp interact with Vps4p and function in multivesicular body sorting and endosomal transport in Saccharomyces cerevisiae. J Cell Sci 116: 3957-3970
50. Yoshimori T, Yamagata F, Yamamoto A, Mizushima N, Kabeya Y, Nara A, Miwako I, Ohashi M, Ohsumi M, Ohsumi Y (2000) The mouse SKD1, a homologue of yeast Vps4p, is required for normal endosomal trafficking and morphology in mammalian cells. Mol Biol Cell 11: 747-763
51. Zhang X, Shaw A, Bates PA, Newman RH, Gowen B, Orlova E, Gorman MA, Kondo H, Dokurno P, Lally J, Leonard G, Meyer H, van Heel M, Freemont PS (2000) Structure of the AAA ATPase p97. Mol Cell 6: 1473-1484