A high-capacity RNA affinity column for the purification of human IRP1 and IRP2 overexpressed in Pichia pastoris

RNA

Volumn 9, Issue 3, 2003, Pages 364-374

  Allerson, Charles R ^a,b   Martinez, Alan ^a   Yikilmaz, Emine ^a   Rouault, Tracey A ^a  

^a EUNICE KENNEDY SHRIVER NATIONAL INSTITUTE OF CHILD HEALTH AND HUMAN DEVELOPMENT   (United States)

^b ISIS PHARMACEUTICALS   (United States)

Author keywords

5 aminoalkyl tether; Affinity chromatography; Iron regulatory proteins; Iron responsive element (IRE); Protein purification; RNA binding proteins; Thiol modified sepharose

Indexed keywords

IRON REGULATORY FACTOR; RNA BINDING PROTEIN; SEPHAROSE;

3' UNTRANSLATED REGION; 5' UNTRANSLATED REGION; AFFINITY CHROMATOGRAPHY; ARTICLE; BINDING AFFINITY; COVALENT BOND; GENE LOCATION; GENE OVEREXPRESSION; GENETIC CONSERVATION; IRON METABOLISM; IRON RESPONSIVE ELEMENT; NONHUMAN; PICHIA PASTORIS; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN ISOLATION; RNA BINDING; RNA STRUCTURE;

CHROMATOGRAPHY, AFFINITY; GENETIC VECTORS; HUMANS; IRON REGULATORY PROTEIN 1; IRON REGULATORY PROTEIN 2; PICHIA; PLANTS, GENETICALLY MODIFIED; RNA;

MAMMALIA; PICHIA; PICHIA PASTORIS; PROKARYOTA;

EID: 0037371823     PISSN: 13558382     EISSN: None     Source Type: Journal    
DOI: 10.1261/rna.2143303     Document Type: Article

References (38)

1. Addess, K.J., Basilion, J.P., Klausner, R.D., Rouault, T.A., and Pardi, A. 1997. Structure and dynamics of the iron responsive element RNA: Implications for binding of the RNA by iron regulatory binding proteins. J. Mol. Biol. 274: 72-83.
2. Allerson, C.R., Chen, S.L., and Verdine, G.L. 1997. A chemical method for site-specific modification of RNA: The convertible nucleoside approach. J. Am. Chem. Soc. 119: 7423-7433.
3. Allerson, C.R., Cazzola, M., and Rouault, T.A. 1999. Clinical severity and thermodynamic effects of iron-responsive element mutations in hereditary hyperferritinemia-cataract syndrome. J. Biol. Chem. 274: 26439-26447.
4. Bachler, M., Schroeder, R., and Ahsen, U.V. 1999. StreptoTag: A novel method for the isolation of RNA-binding proteins. RNA 5: 1509-1516.
5. Basilion, J.P., Kennedy, M.C., Beinert, H., Massinople, C.M., Klausner, R.D., and Rouault, T.A. 1994a. Overexpression of iron-responsive element-binding protein and its analytical characterization as the RNA-binding form, devoid of an iron-sulfur cluster. Arch. Biochem. Biophys. 311: 517-522.
6. Basilion, J.P., Rouault, T.A., Massinople, C.M., Klausner, R.D., and Burgess, W.H. 1994b. The iron-responsive element-binding protein: Localization of the RNA-binding site to the aconitase active-site cleft. Proc. Natl. Acad. Sci. 91: 574-578.
7. Beinert, H., Kennedy, M.C., and Stout, D.C. 1996. Aconitase as ironsulfur protein, enzyme, and iron-regulatory protein. Chem. Rev. 96: 2335-2373.
8. Butt, J., Kim, H.-Y., Basilion, J.P., Cohen, S., Iwai, K., Philpott, C.C., Altschul, S., Klausner, R.D., and Rouault, T.A. 1996. Differences in the RNA binding sites of iron regulatory proteins and potential target diversity. Proc. Natl. Acad. Sci. 93: 4345-4349.
9. Caputi, M., Mayeda, A., Krainer, A.R., and Zahler, A.M. 1999. hnRNP A/B proteins are required for inhibition of HIV-1 pre-mRNA splicing. EMBO J. 18: 4060-4067.
10. Copeland, P.R. and Driscoll, D.M. 1999. Purification, redox sensitivity, and RNA binding properties of SECIS-binding protein 2, a protein involved in selenoprotein biosynthesis. J. Biol. Chem. 274: 25447-25454.
11. Cregg, J.M., Cereghino, J.L., Shi, J., and Higgins, D.R. 2000. Recombinant protein expression in Pichia pastoris. Mol. Biotechnol. 6: 23-52.
12. Guo, B., Phillips, J.D., Yu, Y., and Leibold, E.A. 1995. Iron regulates the intracellular degradation of iron regulatory protein 2 by the proteasome. J. Biol. Chem. 270: 21645-21651.
13. Harford, J.B. and Rouault, T.A. 1998. RNA structure and function in cellular iron homeostasis. In RNA structure and function (eds. R.W. Simons and M. Grunberg-Manago), pp. 575-602. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
14. Hentze, M.W. and Kühn, L.C. 1996. Molecular control of vertebrate iron metabolism: mRNA-based regulatory circuits operated by iron, nitric oxide, and oxidative stress. Proc. Natl. Acad. Sci. 93: 8175-8182.
15. Hirling, H., Emery-Goodman, A., Thompson, N., Neupert, B., Seiser, C., and Kuhn, L.C. 1992. Expression of active iron regulatory factor from a full-length human cDNA by in vitro transcription/translation. Nuc. Acids Res. 20: 33-39.
16. Hirling, H., Henderson, B.R., and Kühn, L.C. 1994. Mutational analysis of the [4Fe-4S]-cluster converting iron regulatory factor from its RNA-binding form to cytoplasmic aconitase. EMBO J. 13: 453-461.
17. Iwai, K., Klausner, R.D., and Rouault, T.A. 1995. Requirements for iron-regulated degradation of the RNA binding protein, iron regulatory protein 2. EMBO J. 14: 5350-5357.
18. Iwai, K., Drake, S.K., Wehr, N.B., Weissman, A.M., LaVaute, T., Minato, N., Klausner, R.D., Levine, R.L., and Rouault, T.A. 1998. Iron-dependent oxidation, ubiquitination, and degradation of iron regulatory protein 2: Implications for degradation of oxidized proteins. Proc. Natl. Acad. Sci. 95: 4924-4928.
19. Kaldy, P., Menotti, E., Moret, R., and Kühn, L.C. 1999. Identification of RNA-binding surfaces in iron regulatory protein-1. EMBO J. 18: 6073-6083.
20. Kaminski, A., Ostareck, D.H., Standart, N.M., and Jackson, R.J. 1998. Affinity methods for isolating RNA binding proteins. In RNA:protein interactions, a practical approach (ed. C.W.J. Smith), pp. 137-160. Oxford University Press, New York.
21. Laing, L.G. and Hall, K.B. 1996. A model of the iron responsive element RNA hairpin loop structure determined from NMR and thermodynamic data. Biochemistry 35: 13586-13596.
22. Larson, C.J. and Verdine, G.L. 1992. A high-capacity column for affinity purification of sequence-specific DNA-binding proteins. Nucleic Acids Res. 20: 3525.
23. Meehan, H.A. and Connell, G.J. 2001. The hairpin loop but not the bulged C of the iron responsive element is essential for high affinity binding to iron regulatory protein-1. J. Biol. Chem. 276: 14791-14796.
24. Neupert, B., Thompson, N.A., Meyer, C., and Kühn, L.C. 1990. A high yield affinity purification method for specific RNA-binding proteins: Isolation of the iron regulatory factor from human placenta. Nucleic Acids Res. 18: 51-55.
25. Phillips, J.D., Guo, B., Yu, Y., Brown, F.M., and Leibold, E.A. 1996. Expression and biochemical characterization of iron regulatory proteins 1 and 2 in Saccharomyces cerevisiae. Biochemistry 35: 15704-15714.
26. Philpott, C.C., Klausner, R.D., and Rouault, T.A. 1994. The bifunctional iron-responsive element binding protein/cytosolic aconitase: The role of active-site residues in ligand binding and regulation. Proc. Natl. Acad. Sci. 91: 7321-7325.
27. Robbins, A.H. and Stout, C.D. 1989. The structure of aconitase. Proteins 5: 289-312.
28. Rouault, T.A. and Klausner, R.D. 1996. Post-transcriptional regulation of genes of iron metabolism in mammalian cells. J. Bioinorg. Chem. 1: 494-499.
29. Rouault, T.A., Hentze, M.W., Haile, D.J., Harford, J.B., and Klausner, R.D. 1989. The iron-responsive element binding protein: A method for the affinity purification of a regulatory RNA-binding protein. Proc. Natl. Acad. Sci. 86: 5768-5772.
30. Rouault, T.A., Stout, C.D., Kaptain, S., Harford, J.B., and Klausner, R.D. 1991. Structural relationship between an iron-regulated RNA-binding protein (IRE-BP) and aconitase: Functional implications. Cell 64: 881-883.
31. Rouault, T.A., Haile, D.J., Downey, W.E., Philpott, C.C., Tang, C., Samaniego, F., Chin, J., Paul, I., Orloff, D., Harford, J.B., et al. 1992. An iron-sulfur cluster plays a novel regulatory role in the iron-responsive element binding protein. BioMetals 5: 131-140.
32. Samaniego, F., Chin, J., Iwai, K., Rouault, T.A., and Klausner, R.D. 1994. Molecular characterization of a second iron-responsive element binding protein, iron regulatory protein 2. J. Biol. Chem. 269: 30904-30910.
33. Schneider, B.D. and Leibold, E.A. 2000. Regulation of mammalian iron homeostasis. Curr. Opin. Clin. Nutr. Metab. Care 3: 267-273.
34. Sela-Brown, A., Silver, J., Brewer, G., and Naveh-Many, T. 2000. Identification of AUF1 as a parathyroid hormone mRNA 3′-untranslated region-binding protein that determines parathyroid hormone mRNA stability. J. Biol. Chem. 275: 7424-7429.
35. Sreekrishna, K., Potenz, R.H.B., Cruze, J.A., McCombie, W.R., Parker, K.A., Nelles, L., Mazzaferro, P.K., Holden, K.A., Harrison, R.G., Wood, P.J., et al. 1988. High level expression of heterologous proteins in methylotrophic yeast Pichia pastoris. J. Basic Microbiol. 28: 265-278.
36. Sreekrishna, K., Brankamp, R.G., Kropp, K.E., Blankenship, D.T., Tsay, J.-T., Smith, P.L., Wierschke, J.D., Subramaniam, A., and Birkenberger, L.A. 1997. Strategies for optimal synthesis and secretion of heterologous proteins in the methylotrophic yeast Pichia pastoris. Gene 190: 55-62.
37. Srisawat, C. and Engelke, D.R. 2001. Streptavidin aptamers: Affinity tags for the study of RNAs and ribonucleoproteins. RNA 7: 632-641.
38. Swenson, G.R. and Walden, W.E. 1994. Localization of an RNA binding element of the iron responsive element binding protein within a proteolytic fragment containing iron coordination ligands. Nucleic Acids Res. 22: 2627-2633.