3dwu: Difference between revisions

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<SX load='3dwu' size='340' side='right' viewer='molstar' caption='[[3dwu]], [[Resolution|resolution]] 12.60&Aring;' scene=''>
<SX load='3dwu' size='340' side='right' viewer='molstar' caption='[[3dwu]], [[Resolution|resolution]] 12.60&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3dwu]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_hb8 Thermus thermophilus hb8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DWU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DWU FirstGlance]. <br>
<table><tr><td colspan='2'>[[3dwu]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DWU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DWU FirstGlance]. <br>
</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1as2|1as2]], [[3dny|3dny]], [[1n0u|1n0u]]</div></td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 12.6&#8491;</td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3dwu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dwu OCA], [https://pdbe.org/3dwu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dwu RCSB], [https://www.ebi.ac.uk/pdbsum/3dwu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dwu ProSAT]</span></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3dwu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dwu OCA], [https://pdbe.org/3dwu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dwu RCSB], [https://www.ebi.ac.uk/pdbsum/3dwu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dwu ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[[https://www.uniprot.org/uniprot/EFTU2_THET8 EFTU2_THET8]] This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis.  
[https://www.uniprot.org/uniprot/EFTU2_THET8 EFTU2_THET8] This protein promotes the GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis.
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3dwu ConSurf].
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3dwu ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
In an attempt to understand ribosome-induced GTP hydrolysis on eEF2, we determined a 12.6-A cryo-electron microscopy reconstruction of the eEF2-bound 80S ribosome in the presence of aluminum tetrafluoride and GDP, with aluminum tetrafluoride mimicking the gamma-phosphate during hydrolysis. This is the first visualization of a structure representing a transition-state complex on the ribosome. Tight interactions are observed between the factor's G domain and the large ribosomal subunit, as well as between domain IV and an intersubunit bridge. In contrast, some of the domains of eEF2 implicated in small subunit binding display a large degree of flexibility. Furthermore, we find support for a transition-state model conformation of the switch I region in this complex where the reoriented switch I region interacts with a conserved rRNA region of the 40S subunit formed by loops of the 18S RNA helices 8 and 14. This complex is structurally distinct from the eEF2-bound 80S ribosome complexes previously reported, and analysis of this map sheds light on the GTPase-coupled translocation mechanism.
Visualization of the eEF2-80S ribosome transition-state complex by cryo-electron microscopy.,Sengupta J, Nilsson J, Gursky R, Kjeldgaard M, Nissen P, Frank J J Mol Biol. 2008 Sep 26;382(1):179-87. Epub 2008 Jul 11. PMID:18644383<ref>PMID:18644383</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3dwu" style="background-color:#fffaf0;"></div>


==See Also==
==See Also==
*[[Elongation factor 3D structures|Elongation factor 3D structures]]
*[[Elongation factor 3D structures|Elongation factor 3D structures]]
== References ==
<references/>
__TOC__
__TOC__
</SX>
</SX>
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Thermus thermophilus hb8]]
[[Category: Thermus thermophilus HB8]]
[[Category: Kjeldgaard, M]]
[[Category: Kjeldgaard M]]
[[Category: Nissen, P]]
[[Category: Nissen P]]
[[Category: Nyborg, J]]
[[Category: Nyborg J]]
[[Category: Antibiotic resistance]]
[[Category: Biosynthetic protein]]
[[Category: Conserved switch i]]
[[Category: Elongation factor]]
[[Category: Gtp-binding]]
[[Category: Membrane]]
[[Category: Methylation]]
[[Category: Nucleotide-binding]]
[[Category: Phosphoprotein]]
[[Category: Protein biosynthesis]]
[[Category: Transition state]]

Latest revision as of 09:43, 21 February 2024

Transition-state model conformation of the switch I region fitted into the cryo-EM map of the eEF2.80S.AlF4.GDP complex

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