Gene silencing pathway RNA-dependent RNA polymerase of Neurospora crassa: Yeast expression and crystallization of selenomethionated QDE-1 protein

Journal of Structural Biology

Volumn 149, Issue 1, 2005, Pages 111-115

  Laurila, Minni R L ^a   Salgado, Paula S ^b   Makeyev, Eugene V ^a   Nettelship, Joanne ^b   Stuart, David I ^b   Grimes, Jonathan M ^b   Bamford, Dennis H ^a  

^a UNIVERSITY OF HELSINKI   (Finland)

^b UNIVERSITY OF OXFORD   (United Kingdom)

Author keywords

Crystallization; Gene silencing pathway; RNA silencing; RNA dependent RNA polymerase; Selenomethionyl QDE 1 protein; Semet; X ray crystallography; Yeast expression

Indexed keywords

PROTOZOAL PROTEIN; QUELLING DEFECTIVE 1 PROTEIN; RNA DIRECTED RNA POLYMERASE; SELENOMETHIONINE; UNCLASSIFIED DRUG;

ARTICLE; CARBOXY TERMINAL SEQUENCE; CRYSTAL STRUCTURE; CRYSTALLIZATION; DIFFRACTION; GENE SILENCING; MASS SPECTROMETRY; MOLECULAR DYNAMICS; NEOSPORA; PRIORITY JOURNAL; PROTEIN EXPRESSION; PROTEIN STRUCTURE; SACCHAROMYCES CEREVISIAE; STRUCTURE ANALYSIS;

CLONING, MOLECULAR; CRYSTALLIZATION; CRYSTALLOGRAPHY, X-RAY; FUNGAL PROTEINS; GENE SILENCING; NEUROSPORA CRASSA; PEPTIDE FRAGMENTS; RNA REPLICASE; SACCHAROMYCES CEREVISIAE; SELENOMETHIONINE;

NEUROSPORA CRASSA; SACCHAROMYCES CEREVISIAE;

EID: 11144224207     PISSN: 10478477     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jsb.2004.10.001     Document Type: Article

References (23)

1. D. Baulcombe RNA silencing Curr. Biol. 12 2002 82 84
2. B. Berkhout RNA interference as an antiviral approach: targeting HIV-1 Curr. Opin. Mol. Ther. 6 2004 141 145
3. P. Braun, Y. Hu, B. Shen, A. Halleck, M. Koundinya, E. Harlow, and J. LaBaer Proteome-scale purification of human proteins from bacteria Proc. Natl. Acad. Sci. USA 99 2002 2654 2659
4. Brown, J., Walter, T.S., Carter, L., Abrescia, N.G.A., Aricescu, A.R., Batuwangala, T.D., Bird, L.E., Brown, N., Chamberlain, P.P., Davis, S.J., Dubinina, E., Endicott, J., Fennelly, J.A., Gilbert, R.J.C., Harkiolaki, M., Hon, W.-C., Kimberley, F., Love, C.A., Mancini, E.J., Manso-Sancho, R., Nichols, C.E., Robinson, R.A., Sutton, G.C., Schueller, N., Sleeman, M.C., Stewart-Jones, G.B., Vuong, M., Welburn, J., Zhang, Z., Stammers, D.K., Owens, R.J., Jones, E.Y., Harlos, K., Stuart, D.I., 2003. A procedure for setting up high-throughput nanolitre crystallization experiments. II. Crystallization results. J. Appl. Cryst. 36, 315-318
5. D.A. Bushnell, P. Cramer, and R.D. Kornberg Selenomethionine incorporation in Saccharomyces cerevisiae RNA polymerase II Structure (Camb.) 9 2001 11 14
6. C. Cogoni, and G. Macino Isolation of quelling-defective (qde) mutants impaired in posttranscriptional transgene-induced gene silencing in Neurospora crassa Proc. Natl. Acad. Sci. USA 94 1997 10233 10238
7. Collaborative Computational Project, N., 1994. The CCP4 suite: programs for protein crystallography. Acta Cryst. D. 50, 760-763
8. A.M. Denli, and G.J. Hannon RNAi: an ever-growing puzzle Trends Biochem. Sci. 28 2003 196 201
9. G. Evans, and R.F. Pettifer CHOOCH: a program for deriving anomalous-scattering factors from X-ray fluorescence spectra J. Appl. Cryst. 34 2001 82 86
10. Frilander, M.J., Turunen, J.J., 2005. RNA ligation by T4 DNA ligase. In: Hartman, R.K., Bindereif, A., Schön, E., Westhof, E. (Eds.), Handbook of RNA biochemistry. Wiley-VCH Verlag GmbH & Co KgaA, Weinheim (in press)
11. E. Giniger, S.M. Varnum, and M. Ptashne Specific DNA binding of GAL4, a positive regulatory protein of yeast Cell 40 1985 767 774
12. P. Gottlieb, J. Strassman, X. Qiao, M. Frilander, A. Frucht, and L. Mindich In vitro packaging and replication of individual genomic segments of bacteriophage phi 6 RNA J. Virol. 66 1992 2611 2616
13. C.W. Goulding, and L.J. Perry Protein production in Escherichia coli for structural studies by X-ray crystallography J. Struct. Biol. 142 2003 133 143
14. W.A. Hendrickson Determination of macromolecular structures from anomalous diffraction of synchrotron radiation Science 254 1991 51 58
15. Invitrogen, 2003. pYES2/CT, pYES3/CT, and pYC2/CT. Yeast expression vectors with C-terminal tags and auxotrophic selection markers. Invitrogen. Available from: < http://www.invitrogen.com/content/sfs/manuals/ pyes2ctpyes3ctpyc2ct_man.pdf >
16. A.M. Larsson, J. Stahlberg, and T.A. Jones Preparation and crystallization of selenomethionyl dextranase from Penicillium minioluteum expressed in Pichia pastoris Acta Cryst. D 58 2002 346 348
17. A.M. Larsson, R. Andersson, J. Stahlberg, L. Kenne, and T.A. Jones Dextranase from Penicillium minioluteum: reaction course, crystal structure, and product complex Structure (Camb.) 11 2003 1111 1121
18. E.V. Makeyev, and D.H. Bamford Cellular RNA-dependent RNA polymerase involved in posttranscriptional gene silencing has two distinct activity modes Mol. Cell 10 2002 1417 1427
19. M.K. Montgomery RNA interference: historical overview and significance Methods Mol. Biol. 265 2004 3 21
20. Z. Otwinowski, and W. Minor Processing of X-ray diffraction data collected in oscillation mode Macromol. Crystallogr. 276 1997 307 326
21. N.R. Wall, and Y. Shi Small RNA: can RNA interference be exploited for therapy? Lancet 362 2003 1401 1403
22. T.S. Walter, J. Diprose, J. Brown, M. Pickford, R.J. Owens, D.I. Stuart, and K. Harlos A procedure for setting up high-throughput nanolitre crystallization experiments. I. Protocol design and validation J. Appl. Cryst. 36 2003 308 314
23. C.M. Weeks, and R. Miller The design and implementation of SnB 2.0 J. Appl. Cryst. 32 1999 120 124