2pmd
From Proteopedia
(New page: 200px<br /><applet load="2pmd" size="350" color="white" frame="true" align="right" spinBox="true" caption="2pmd, resolution 2.65Å" /> '''The structures of aI...) |
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==Overview== | ==Overview== | ||
| - | Heterotrimeric a/eIF2alphabetagamma (archaeal homologue of the eukaryotic | + | Heterotrimeric a/eIF2alphabetagamma (archaeal homologue of the eukaryotic translation initiation factor 2 with alpha, beta and gamma subunits) delivers charged initiator tRNA (tRNAi) to the small ribosomal subunit. In this work, we determined the structures of aIF2gamma from the archaeon Sulfolobus solfataricus in the nucleotide-free and GDP-bound forms. Comparison of the free, GDP and Gpp(NH)p-Mg2+ forms of aIF2gamma revealed a sequence of conformational changes upon GDP and GTP binding. Our results show that the affinity of GDP to the G domain of the gamma subunit is higher than that of Gpp(NH)p. In analyzing a pyrophosphate molecule binding to domain II of the gamma subunit, we found a cleft that is very suitable for the acceptor stem of tRNA accommodation. It allows the suggestion of an alternative position for Met-tRNA i Met on the alphagamma intersubunit dimer, at variance with a recently published one. In the model reported here, the acceptor stem of the tRNAi is approximately perpendicular to that of tRNA in the ternary complex elongation factor Tu-Gpp(NH)p-tRNA. According to our analysis, the elbow and T stem of Met-tRNA i Met in this position should make extensive contact with the alpha subunit of aIF2. Thus, this model is in good agreement with experimental data showing that the alpha subunit of aIF2 is necessary for the stable interaction of aIF2gamma with Met-tRNA i Met. |
==About this Structure== | ==About this Structure== | ||
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==Reference== | ==Reference== | ||
| - | New | + | New insights into the interactions of the translation initiation factor 2 from archaea with guanine nucleotides and initiator tRNA., Nikonov O, Stolboushkina E, Nikulin A, Hasenohrl D, Blasi U, Manstein DJ, Fedorov R, Garber M, Nikonov S, J Mol Biol. 2007 Oct 19;373(2):328-36. Epub 2007 Aug 2. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=17825838 17825838] |
[[Category: Single protein]] | [[Category: Single protein]] | ||
[[Category: Sulfolobus solfataricus]] | [[Category: Sulfolobus solfataricus]] | ||
[[Category: Blaesi, U.]] | [[Category: Blaesi, U.]] | ||
| - | [[Category: Fedorov, R | + | [[Category: Fedorov, R V.]] |
| - | [[Category: Garber, M | + | [[Category: Garber, M B.]] |
[[Category: Hasenohrl, D.]] | [[Category: Hasenohrl, D.]] | ||
| - | [[Category: Manstein, D | + | [[Category: Manstein, D J.]] |
| - | [[Category: Nikonov, O | + | [[Category: Nikonov, O S.]] |
| - | [[Category: Nikonov, S | + | [[Category: Nikonov, S V]] |
| - | [[Category: Nikulin, A | + | [[Category: Nikulin, A D.]] |
| - | [[Category: Stolboushkina, E | + | [[Category: Stolboushkina, E A.]] |
[[Category: GDP]] | [[Category: GDP]] | ||
[[Category: GNP]] | [[Category: GNP]] | ||
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[[Category: pyrophosphate]] | [[Category: pyrophosphate]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 18:30:59 2008'' |
Revision as of 16:30, 21 February 2008
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The structures of aIF2gamma subunit from the archaeon Sulfolobus solfataricus in the GDP-bound form.
Overview
Heterotrimeric a/eIF2alphabetagamma (archaeal homologue of the eukaryotic translation initiation factor 2 with alpha, beta and gamma subunits) delivers charged initiator tRNA (tRNAi) to the small ribosomal subunit. In this work, we determined the structures of aIF2gamma from the archaeon Sulfolobus solfataricus in the nucleotide-free and GDP-bound forms. Comparison of the free, GDP and Gpp(NH)p-Mg2+ forms of aIF2gamma revealed a sequence of conformational changes upon GDP and GTP binding. Our results show that the affinity of GDP to the G domain of the gamma subunit is higher than that of Gpp(NH)p. In analyzing a pyrophosphate molecule binding to domain II of the gamma subunit, we found a cleft that is very suitable for the acceptor stem of tRNA accommodation. It allows the suggestion of an alternative position for Met-tRNA i Met on the alphagamma intersubunit dimer, at variance with a recently published one. In the model reported here, the acceptor stem of the tRNAi is approximately perpendicular to that of tRNA in the ternary complex elongation factor Tu-Gpp(NH)p-tRNA. According to our analysis, the elbow and T stem of Met-tRNA i Met in this position should make extensive contact with the alpha subunit of aIF2. Thus, this model is in good agreement with experimental data showing that the alpha subunit of aIF2 is necessary for the stable interaction of aIF2gamma with Met-tRNA i Met.
About this Structure
2PMD is a Single protein structure of sequence from Sulfolobus solfataricus with , and as ligands. Full crystallographic information is available from OCA.
Reference
New insights into the interactions of the translation initiation factor 2 from archaea with guanine nucleotides and initiator tRNA., Nikonov O, Stolboushkina E, Nikulin A, Hasenohrl D, Blasi U, Manstein DJ, Fedorov R, Garber M, Nikonov S, J Mol Biol. 2007 Oct 19;373(2):328-36. Epub 2007 Aug 2. PMID:17825838
Page seeded by OCA on Thu Feb 21 18:30:59 2008
Categories: Single protein | Sulfolobus solfataricus | Blaesi, U. | Fedorov, R V. | Garber, M B. | Hasenohrl, D. | Manstein, D J. | Nikonov, O S. | Nikonov, S V | Nikulin, A D. | Stolboushkina, E A. | GDP | GNP | PPV | Aif2 | Gdp | Gdpnp | Initiation factor 2 gamma subunit | Initiation of the translation | Nucleotide binding | Pyrophosphate
