Molecular cloning and co-expression of Thermoplasma volcanium proteasome subunit genes

Protein Expression and Purification

Volumn 73, Issue 2, 2010, Pages 223-230

  Kocabiyik, Semra ^a   Özdemir, Inci ^a   Zwickl, Peter ^b   Özdoǧan, Seda ^a  

^a MIDDLE EAST TECHNICAL UNIVERSITY   (Turkey)

^b MAX PLANCK INSTITUTE OF BIOCHEMISTRY   (Germany)

Author keywords

20S proteasome; Heterologous expression; Thermoplasma volcanium

Indexed keywords

ALANYLPHENYLALANINE; ARCHAEAL PROTEIN; DIPEPTIDE; PEPTIDE; PROTEASOME, THERMOPLASMA; PROTEINASE; RECOMBINANT PROTEIN;

ARTICLE; CHEMISTRY; COMPARATIVE STUDY; ENZYME SPECIFICITY; ESCHERICHIA COLI; GENE VECTOR; GENETICS; HUMAN; HYDROLYSIS; ISOLATION AND PURIFICATION; METABOLISM; MOLECULAR CLONING; POLYACRYLAMIDE GEL ELECTROPHORESIS; PROTEIN CONFORMATION; ULTRASTRUCTURE;

ARCHAEAL PROTEINS; CLONING, MOLECULAR; DIPEPTIDES; ELECTROPHORESIS, POLYACRYLAMIDE GEL; ENDOPEPTIDASES; ESCHERICHIA COLI; GENETIC VECTORS; HUMANS; HYDROLYSIS; PEPTIDES; PROTEIN CONFORMATION; RECOMBINANT PROTEINS; SUBSTRATE SPECIFICITY;

ARCHAEA; ESCHERICHIA COLI; PROKARYOTA; THERMOPLASMA; THERMOPLASMA VOLCANIUM;

EID: 77955422787     PISSN: 10465928     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.pep.2010.05.004     Document Type: Article

References (52)

1. P. Zwickl, D. Ng, K.M. Woo, H.-P. Klenk, and A.L. Goldberg An archaebacterial ATPase, homologous to ATPases in the eucaryotic 26S proteasome, activates protein breakdown by 20S proteasomes J. Biol. Chem. 274 1999 26008 26014
2. H. Chamieh, D. Guetta, and B. Franzetti The two PAN ATPases from Halobacterium display N-terminal heterogeneity and form labile complexes with the 20S proteasome Biochem. J. 411 2008 387 397
3. H.L. Wilson, M.S. Ou, H.C. Aldrich, and J.A. Maupin-Furlow Biochemical and physical properties of the Methanococcus jannaschii 20S proteasome and Pan, a homolog of the ATPase (Rpt) subunits of the eucaryal 26S proteasome J. Bacteriol. 182 2000 1680 1692
4. M.W. Bauer, S.H. Bauer, and R.M. Kelly Purification and characterization of a proteasome from hyperthermophilic archaeon Pyrococcus furiosus Appl. Environ. Microbiol. 63 1997 1160 1164
5. B. Dahlman, F. Kopp, L. Kuehn, B. Niedel, G. Pfiefer, R. Hegerl, and W. Baumeister The multicatalytic proteinase (prosome) is ubiquitous from eucaryotes to archaebacteria FEBS Lett. 251 1989 125 131
6. B. Franzetti, G. Schoehn, D. Garcia, R.W. Ruigrok, and G. Zaccai Characterization of the proteasome from the extremely halophylic archaeon Haloarcula marismortui Archaea 1 2002 53 61
7. J.A. Maupin-Furlow, and J.G. Ferry A proteasome from the methanogenic archaeon Methanosarcina thermophila J. Biol. Chem. 270 1995 28617 28622
8. N. Medalia, M. Sharon, R. Martinez-Arias, O. Michalache, C.V. Rabinson, O. Medalia, and P. Zwickl Functional and structural characterization of the Methanosarcina mazei proteasome and PAN complexes J. Struct. Biol. 156 2006 84 92
9. P. Zwickl, A. Grizawa, G. Puhler, B. Dahlmann, F. Lottspeich, and W. Baumeister Primary structure of the Thermoplasma proteasome and its implications for the structure, function and evolution of the multicatalytic proteinase Biochemistry 31 1992 964 972
10. J. Löwe, D. Stock, B. Jap, P. Zwickl, W. Baumeister, and R. Huber Crystal structure of the 20S proteasome form the archaeon T. acidophilum at 3.4 resolution Science 268 1995 533 539
11. A. Grziwa, W. Baumeister, B. Dahlmann, and F. Koop Localization of subunits in proteasomes from Thermoplasma acidophilum by immunoelectron microscopy FEBS Lett. 290 1991 186 190
12. J.A. Brannigan, G. Dodson, H.J. Duggleby, P.C.E. Moody, J.L. Smith, D.R. Tomchick, and A.G. Murzin A protein catalytic framework with an N-terminal nucleophile is capable of self-activation Nature 378 1995 416 419
13. T.N. Akopian, A.F. Kisselev, and A.L. Goldberg Processive degradation of proteins and other catalytic properties of the proteasome from Thermoplasma acidophilum J. Biol. Chem. 272 1997 1791 1798
14. J.A. Maupin-Furlow, H.C. Aldrich, and J.G. Ferry Biochemical characterization of the 20S proteasome from the methanoarchaeon Methanosarcina thermophila J. Bacteriol. 180 1998 1480 1487
15. A.F. Kisselev, T.N. Akopian, and A.L. Goldberg Range of sizes of peptide products generated during degradation of different proteins by archaeal proteasomes J. Biol. Chem. 273 1998 1981 1998
16. T. Tamura, I. Nagy, A. Lupas, F. Lottspeich, Z. Cejka, G. Schoofs, K. Tanaka, R. DeMot, and W. Baumeister The first characterization of a eubacterial proteasome: the 20S complex of Rhodococcus Curr. Biol. 5 1995 766 774
17. M. Groll, L. Ditzel, J. Löwe, D. Stock, M. Bochtler, H.D. Bartunik, and R. Huber Structure of 20S proteasome from yeast at 2.4 resolution Nature 386 1997 463 471
18. T.A. Griffin, D. Nandi, M. Cruz, H.J. Fehling, L. Van Kaer, J.J. Monaco, and R.A. Colbert Immunoproteasome assembly: cooperative incorporation of interferon gamma (IFN)-gamma-inducible subunits J. Exp. Med. 187 1998 97 104
19. S.J. Kaczowka, and J.A. Maupin-Furlow Subunit topology of two proteasomes from Haloferax volcanii J. Bacteriol. 185 2003 165 174
20. C.J. Bult, O. White, G.J. Olsen, L. Zhou, R.D. Fleischmann, G.G. Sutton, J.A. Blake, L.M. FitzGerald, R.A. Clayton, J.D. Gocayne, A.R. Kerlavage, B.A. Dougherty, J.F. Tomb, M.D. Adams, C.I. Reich, R. Overbeek, E.F. Kirkness, K.G. Weinstock, J.M. Merrick, A. Glodek, J.L. Scott, N.S.M. Geoghagen, J.F. Weidman, J.L. Fuhrmann, D. Nguyen, T.R. Utterback, J.M. Kelley, J.D. Peterson, P.W. Sadow, M.C. Hanna, M.D. Cotton, K.M. Roberts, M.A. Hurst, B.P. Kaine, M. Borodovsky, H.P. Klenk, C.M. Fraser, H.O. Smith, C.R. Woese, and J.C. Venter Complete sequence of the methanogenic archaeon, Methanococcus jannaschii Science 273 1996 1058 1073
21. T. Kawashima, N. Amano, H. Koike, S.-I. Makino, S. Higuchi, Y. Kawashima-Ohya, K. Watanabe, M. Yamazaki, K. Kanehori, T. Kawamoto, T. Nunoshiba, Y. Yamamoto, H. Aramaki, K. Makino, and M. Suzuki Archaeal adaptation to higher temperatures revealed by genomic sequence of Thermoplasma volcanium Proc. Natl. Acad. Sci. USA 97 2000 14257 14262
22. H.P. Klenk, R.A. Clayton, J.-F. Tomb, O. White, K.E. Nelson, K.A. Ketchum, R.J. Dodson, M. Gwinn, E.K. Hickey, J.D. Peterson, D.L. Richardson, A.R. Kerlavage, D.E. Graham, N.C. Kyrpides, R.D. Fleischmann, J. Quackenbush, N.H. Lee, G.G. Sutton, S. Gill, E.F. Kirkness, B.A. Dougherty, K. McKenney, M.D. Adams, B. Loftus, S. Peterson, C.I. Reich, L.K. McNeil, J.H. Badger, A. Glodek, L. Zhou, R. Overbeek, J.D. Gocayne, J.F. Weidman, L. McDonald, T. Utterback, M.D. Cotton, T. Spriggs, P. Artiach, B.P. Kaine, S.M. Sykes, P.W. Sadow, K.P. D'Andrea, C. Bowman, C. Fujii, S.A. Garland, T.M. Mason, G.J. Olsen, C.M. Fraser, H.O. Smith, C.R. Woese, and J.C. Venter The complete genome sequence of the hyperthermophilic, Sulphate reducing archaeon Archaeoglobus fulgidus Nature 390 1997 364 383
23. D.R. Smith, L.A. DoucetteStamm, C. Deloughery, H. Lee, J. Dubois, T. Aldredge, R. Bashirzadeh, D. Blakely, R. Cook, K. Gilbert, D. Harrison, L. Hoang, P. Keagle, W. Lumm, B. Pothier, D. Qiu, R. Spadafora, R. Vicaire, Y. Wang, J. Wierzbowski, R. Gibson, N. Jiwani, A. Caruso, D. Bush, H. Safer, D. Patwell, S. Prabhakar, S. Mcdougall, G. Shimer, A. Goyal, S. Pietrokovski, G.M. Church, C.J. Daniels, J. Mao, P. Rice, J. Iling, and J.N. Reev Complete genome sequence of Methanobacterium thermoautotrophicum ΔH: functional analysis and comparative genomics J. Bacteriol. 179 1997 7135 7155
24. D. Zaiss, S. Standera, P. Kloetzel, and A. Sijts PI31 is a modulator of proteasome formation and antigen processing Proc. Natl. Acad. Sci. 99 2002 14344 14349 (Pubitemid 35257674)
25. P.M. Kloetzel The proteasome and MHC class I antigen processing Biochim. Biophys. Acta 1695 2004 225 233
26. P. Cascio, and A.L. Goldberg Preparation of hybrid (19S-20S-PA28) proteasome complexes and analysis of peptides during protein degradation Methods Enzymol. 398 2005 336 352
27. M. Gaczynska, and P.A. Osmulski Characterization of noncompetitive regulators of proteasome activity Methods Enzymol. 398 2005 425 438
28. N. Benaroudj, and A.L. Goldberg PAN, the proteasome-activating nucleotidase from archaebacteria, is a protein-unfolding molecular chaperone Nat. Cell Biol. 2 2000 833 839
29. A. Navon, and A.L. Goldberg Proteins are unfolded on the surface of the ATPase ring before transport into the proteasome Mol. Cell 8 2001 1339 1349
30. F.T. Robb, and A.R. Place Molecular Cloning, A Laboratory Manual 1995 Cold Spring Harbor Laboratory Press Cold Spring Harbor
31. S. Kocabiyik, and B. Demirok Cloning and over expression of a thermostable signal peptide peptidase (SppA) from Thermoplasma volcanium GSS1 in E. coli Biotechnol. J. 4 2009 1055 1065
32. C.T. Chung, S.L. Niemela, and R.H. Miller One-step preparation of competent Escherichia coli: transformation and storage of bacterial cells in the same solution Proc. Natl. Acad. Sci. USA 86 1998 2172 2175
33. J.R. Whitaker, and P.E. Granum An absolute method for protein determination based on differences in absorbance at 235 and 280 nm Anal. Biochem. 109 1980 156 159
34. U.K. Laemmli Cleavage of structural proteins during assembly of the head of bacteriophage T4 Nature 227 1970 680 685
35. M. Groll, M. Bajorek, A. Kohler, L. Moreder, D.M. Rubin, R. Huber, M.H. Glickman, and D. Finley A gated channel into the proteasome core particle Nat. Struct. Biol. 7 2000 1062 1067
36. M. Groll, H. Branstetter, H. Bartunik, G. Bourenkow, and R. Huber Investigations on the maturation and regulation of archaeabacterial proteasomes J. Mol. Biol. 327 2003 75 83
37. A. Kohler, P. Cascio, D.S. Leggett, K.M. Woo, A.L. Goldberg, and D. Finley The axial channel of the proteasome core particle is gated by the Rpt2 ATPase and controls both substrate entry and product release Mol. Cell 7 2001 1143 1152
38. D.M. Smith, G. Kafri, Y. Cheng, D. Ng, T. Waltz, and A.L. Goldberg ATP binding to PAN or the 26S ATPases causes association with the 20S proteasome, Gate opening and translocation of unfolded proteins Mol. Cell 20 2005 687 698
39. D.M. Smith, S.-C. Chang, S. Park, D. Finley, Y. Cheng, and A.L. Goldberg Docking of the proteasomal ATPases' carboxy termini in the 20S proteasome's ring opens the gate for substrate entry Mol. Cell 27 2007 731 744
40. A. Foster, E.I. Masters, F.G. Whitby, H. Robinson, and C.P. Hill The 1.9 structure of a proteasome-11S activator complex and implications for proteasome-PAN/PA700 interactions Mol. Cell 18 2005 589 599
41. D.M. Smith, M. Benaroudj, and A.L. Goldberg Proteasomes and their associated ATPases: a destructive combination J. Struct. Biol. 156 2006 72 83
42. H.L. Wilson, H.C. Aldrich, and J.A. Maupin-Furlow Halophilic 20S proteasomes of the Archaeon Haloferax volcanii: purification, characterization and gene sequence analysis J. Bacteriol. 181 1999 5814 5824
43. P. Zwickl, F. Lottspeich, B. Dahlmann, and W. Baumeister Cloning and sequencing of the gene encoding the large (α-)subunit of the proteasome from Thermoplasma acidophilum FEBS Lett. 278 1991 217 221
44. M.A. Humbard, S.M. Stevens Jr., and J.A. Maupin-Furlow Posttranslational modification of the 20S proteasomal proteins of the archaeon Haloferax volcanii J. Bacteriol. 188 2006 7521 7530
45. S. Bose, F.L. Stratford, K.I. Broadfoot, G.G. Mason, and A.J. Rivett Phosphorylation of 20S proteasome alpha subunit C8 (7) stabilizes the 26S proteasome and plays a role in the regulation of proteasome complexes by γ-interferon Biochem. J. 378 2004 177 184
46. P.F. Murray, P.S. Pardo, A.M. Zelada, and S. Passeron In vivo and in vitro phosphorylation of Candida albicans 20S proteasome Arch. Biochim. Biophys. 404 2002 116 125
47. P.M. Nederlof, H.R. Wang, and W. Baumeister Nuclear localization signals of human and Thermoplasma proteasomal subunits are functional in vitro Proc. Natl. Acad. Sci. USA 92 1995 12060 12064
48. V. Pamnani, T. Tamura, A. Lupas, J. Peters, Z. Cejka, W. Ashraf, and W. Baumeister Cloning, sequencing, and expression of VAT, a CDC48/p97 ATPase homologue from the archaeon Thermoplasma acidophilum FEBS Lett. 404 1997 263 268
49. E. Seemüller, A. Lupas, and W. Baumeister Autocatalytic processing of the 20S proteasome Nature 382 1996 468 470
50. J.M. Walker The Protein Protocols Handbook second ed. 2002 Humana Press Inc. New Jersey
51. G.B. Smejkal The coomassie chronicles: past, present and future perspectives in polyacrylamide gel staining Expert Rev. Proteomics 1 2004 381 387
52. B. Dahlmann, L. Kuehn, A. Grizwa, P. Zwickl, and W. Baumeister Biochemical properties of the proteasome from Thermoplasma acidophilum Eur. J. Biochem. 208 1992 789 797