Crystal structure of the archaeal translation initiation factor 2 in complex with a GTP analogue and met-tRNAfMet

Journal of Molecular Biology

Volumn 425, Issue 6, 2013, Pages 989-998

  Stolboushkina, Elena ^a   Nikonov, Stanislav ^a   Zelinskaya, Natalia ^a   Arkhipova, Valentina ^a   Nikulin, Alexei ^a   Garber, Maria ^a   Nikonov, Oleg ^a  

^a INSTITUTE OF PROTEIN RESEARCH   (Russian Federation)

Author keywords

archaea; e aIF2; ribosome; translation initiation

Indexed keywords

ELONGATION FACTOR TU; GUANOSINE TRIPHOSPHATE DERIVATIVE; HYDROXYL RADICAL; INITIATION FACTOR 2; METHIONINE; METHIONINE TRANSFER RNA; TERNARY COMPLEX FACTOR;

ARTICLE; BIOCHEMISTRY; COMPLEX FORMATION; CRYSTAL STRUCTURE; ESCHERICHIA COLI; NONHUMAN; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN RNA BINDING; PROTEIN STRUCTURE; SULFOLOBUS SOLFATARICUS;

ARCHAEA; BACTERIA (MICROORGANISMS); EUKARYOTA;

EID: 84875444436     PISSN: 00222836     EISSN: 10898638     Source Type: Journal    
DOI: 10.1016/j.jmb.2012.12.023     Document Type: Article

References (29)

1. T. Ito, A. Marintchev, and G. Wagner Solution structure of human initiation factor eIF2alpha reveals homology to the elongation factor eEF1B Structure 12 2004 1693 1704
2. L. Yatime, E. Schmitt, S. Blanquet, and Y. Mechulam Structure-function relationships of the intact aIF2α subunit from the archaeon Pyrococcus abyssi Biochemistry 44 2005 8749 8756
3. L. Yatime, Y. Mechulam, S. Blanquet, and E. Schmitt Structural switch of the γ subunit in an archaeal aIF2αγ heterodimer Structure 14 2006 119 128
4. E. Stolboushkina, S. Nikonov, A. Nikulin, U. Bläsi, D.J. Manstein, and R. Fedorov Crystal structure of the intact translation initiation factor 2 demonstrates very high conformational flexibility in the α- and β-subunits J. Mol. Biol. 382 2008 680 691
5. E. Schmitt, S. Blanquet, and Y. Mechulam The large subunit of initiation factor aIF2 is a close structural homologue of elongation factors EMBO J. 21 2002 1821 1832
6. N. Pedulla, R. Palermo, D. Hasenöhrl, U. Bläsi, P. Cammarano, and P. Londei The archaeal eIF2 homologue: functional properties of an ancient translation initiation factor Nucleic Acids Res. 33 2005 1804 1812
7. L. Yatime, Y. Mechulam, S. Blanquet, and E. Schmitt Structure of an archaeal heterotrimeric initiation factor 2 reveals a nucleotide state between GTP and GDP states Proc. Natl Acad. Sci. USA 104 2007 18445 18450
8. A. Roll-Mecak, P. Alone, C. Cao, T.E. Dever, and S.K. Burley X-ray structure of translation initiation factor eIF2gamma: implications for tRNA and eIF2alpha binding J. Biol. Chem. 279 2004 10634 10642
9. S.E. Dmitriev, E.A. Stolboushkina, I.M. Terenin, D.E. Andreev, M.B. Garber, and I.N. Shatsky Archaeal translation initiation factor aIF2 activity in heterologous eukaryotic system J. Mol. Biol. 413 2012 106 114
10. M. Naveau, C. Lazennec-Schurdevin, M. Panvert, Y. Mechulam, and E. Schmitt tRNA binding properties of eukaryotic translation initiation factor 2 from Encephalitozoon cuniculi Biochemistry 49 2010 8680 8688
11. L. Yatime, E. Schmitt, S. Blanquet, and Y. Mechulam Functional molecular mapping of archaeal translation initiation factor 2 J. Biol. Chem. 279 2004 15984 15993
12. P. Nissen, M. Kjeldgaard, S. Thirup, G. Polekhina, L. Reshetnikova, B.F.C. Clark, and J. Nyborg Crystal structure of the ternary complex of Phe-tRNAPhe, EF-Tu, and a GTP analog Science 270 1995 1464 1472
13. P. Nissen, S. Thirup, M. Kjeldgaard, and J. Nyborg The crystal structure of Cys-tRNACys-EF-Tu-GDPNP reveals general and specific features in the ternary complex and in tRNA Struct. Fold. Des. 7 1999 143 156
14. O. Nikonov, E. Stolboushkina, A. Nikulin, D. Hasenöhrl, U. Bläsi, and D.J. Manstein New insights into the interactions of the translation initiation factor 2 from archaea with guanine nucleotides and initiator tRNA J. Mol. Biol. 373 2007 328 336
15. B.-S. Shin, J.-R. Kim, S. Walker, J. Dong, J.R. Lorsch, and T.E. Dever Initiation factor eIF2γ promotes eIF2-GTP-Met-tRNAiMet ternary complex binding to the 40S ribosome Nat. Struct. Mol. Biol. 18 2011 1227 1234
16. E. Schmitt, M. Panvert, C. Lazennec-Schurdevin, P.-D. Coureux, J. Perez, A. Thompson, and Y. Mechulam Structure of the ternary initiation complex aIF2-GDPNP-methionylated initiator tRNA Nat. Struct. Mol. Biol. 19 2012 450 454
17. K. Suhre, and Y.H. Sanejouand On the potential of normal mode analysis for solving difficult molecular replacement problems Acta Crystallogr., Sect. D 60 2004 796 799
18. M. Sokabe, M. Yao, N. Sakai, S. Toya, and I. Tanaka Structure of archaeal translational initiation factor 2 βγ-GDP reveals significant conformational change of the β subunit and switch 1 region Proc. Natl Acad. Sci. USA 103 2006 13016 13021
19. Met EMBO J. 17 1998 6819 6826
20. F. Erickson, and E. Hannig Ligand interactions with eukaryotic translation initiation factor 2: role of the gamma-subunit EMBO J. 15 1996 6311 6320
21. S. Kolitz, and J.R. Lorsch Eukaryotic initiator tRNA: finely tuned and ready for action FEBS Lett. 584 2010 396 404
22. G. Zubay The isolation and fractionation of soluble ribonucleic acid J. Mol. Biol. 4 1962 347 356
23. P. Mellot, Y. Mechulam, D. Le Corre, S. Blanquet, and G. Fayat Identification of an amino acid region supporting specific methionyl-tRNA synthetase: tRNA recognition J. Mol. Biol. 208 1989 429 443
24. W. Kabsch Automatic processing of rotation diffraction data from crystals of initially unknown symmetry and cell constants J. Appl. Crystallogr. 26 1993 795 800
25. T.O. Yeates Detecting and overcoming crystal twinning Methods Enzymol. 276 1997 344 358
26. L.C. Storoni, A.J. McCoy, and R.J. Read Likelihood-enhanced fast rotation functions Acta Crystallogr., Sect. D 60 2004 432 438
27. K. Suhre, and Y.H. Sanejouand ElNemo: a normal mode web-server for protein movement analysis and the generation of templates for molecular replacement Nucleic Acids Res. 32 2004 610 614
28. A.T. Brunger, P.D. Adams, G.M. Clore, W.L. DeLano, P. Gros, and R.W. Grosse-Kunstleve Crystallography and NMR system: a new software suite for macromolecular structure determination Acta Crystallogr., Sect. D 54 1998 905 921
29. P.D. Adams, R.W. Grosse-Kunstleve, L.W. Hung, T.R. Ioergew, A.J. McCoy, and N.W. Moriarty PHENIX: building new software for automatic crystallographic structure determination Acta Crystallogr., Sect. D 58 2002 1948 1954