This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


1n0u

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /> <applet load="1n0u" size="450" color="white" frame="true" align="right" spinBox="true" caption="1n0u, resolution 2.12&Aring;" /> '''Crystal structure o...)
Current revision (07:50, 14 February 2024) (edit) (undo)
 
(17 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1n0u.gif|left|200px]]<br />
 
-
<applet load="1n0u" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1n0u, resolution 2.12&Aring;" />
 
-
'''Crystal structure of yeast elongation factor 2 in complex with sordarin'''<br />
 
-
==Overview==
+
==Crystal structure of yeast elongation factor 2 in complex with sordarin==
-
Two crystal structures of yeast translation elongation factor 2 (eEF2), were determined: the apo form at 2.9 A resolution and eEF2 in the presence, of the translocation inhibitor sordarin at 2.1 A resolution. The overall, conformation of apo eEF2 is similar to that of its prokaryotic homolog, elongation factor G (EF-G) in complex with GDP. Upon sordarin binding, the, three tRNA-mimicking C-terminal domains undergo substantial conformational, changes, while the three N-terminal domains containing the, nucleotide-binding site form an almost rigid unit. The conformation of, eEF2 in complex with sordarin is entirely different from known, conformations observed in crystal structures of EF-G or from cryo-EM, studies of EF-G-70S complexes. The domain rearrangements induced by, sordarin binding and the highly ordered drug-binding site observed in the, eEF2-sordarin structure provide a high-resolution structural basis for the, mechanism of sordarin inhibition. The two structures also emphasize the, dynamic nature of the ribosomal translocase.
+
<StructureSection load='1n0u' size='340' side='right'caption='[[1n0u]], [[Resolution|resolution]] 2.12&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1n0u]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. The September 2006 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Elongation Factors'' by David S. Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2006_9 10.2210/rcsb_pdb/mom_2006_9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1N0U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1N0U FirstGlance]. <br>
 +
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.12&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO1:[1R-(1.ALPHA.,3A.BETA.,4.BETA.,4A.BETA.,7.BETA.,7A.ALPHA.,8A.BETA.)]8A-[(6-DEOXY-4-O-METHYL-BETA-D-ALTROPYRANOSYLOXY)METHYL]-4-FORMYL-4,4A,5,6,7,7A,8,8A-OCTAHYDRO-7-METHYL-3-(1-METHYLETHYL)-1,4-METHANO-S-INDACENE-3A(1H)-CARBOXYLIC+ACID'>SO1</scene></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=1n0u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1n0u OCA], [https://pdbe.org/1n0u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1n0u RCSB], [https://www.ebi.ac.uk/pdbsum/1n0u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1n0u ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/EF2_YEAST EF2_YEAST]
 +
== Evolutionary Conservation ==
 +
[[Image:Consurf_key_small.gif|200px|right]]
 +
Check<jmol>
 +
<jmolCheckbox>
 +
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/n0/1n0u_consurf.spt"</scriptWhenChecked>
 +
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
 +
<text>to colour the structure by Evolutionary Conservation</text>
 +
</jmolCheckbox>
 +
</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=1n0u ConSurf].
 +
<div style="clear:both"></div>
-
==About this Structure==
+
==See Also==
-
1N0U is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae] with SO1 as [http://en.wikipedia.org/wiki/ligand ligand]. The following page contains interesting information on the relation of 1N0U with [[http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb81_1.html Elongation Factors]]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1N0U OCA].
+
*[[Elongation factor 3D structures|Elongation factor 3D structures]]
-
 
+
__TOC__
-
==Reference==
+
</StructureSection>
-
Two crystal structures demonstrate large conformational changes in the eukaryotic ribosomal translocase., Jorgensen R, Ortiz PA, Carr-Schmid A, Nissen P, Kinzy TG, Andersen GR, Nat Struct Biol. 2003 May;10(5):379-85. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12692531 12692531]
+
[[Category: Elongation Factors]]
[[Category: Elongation Factors]]
 +
[[Category: Large Structures]]
 +
[[Category: RCSB PDB Molecule of the Month]]
[[Category: Saccharomyces cerevisiae]]
[[Category: Saccharomyces cerevisiae]]
-
[[Category: Single protein]]
+
[[Category: Andersen GR]]
-
[[Category: Andersen, G.R.]]
+
[[Category: Carr-Schmid A]]
-
[[Category: Carr-Schmid, A.]]
+
[[Category: Joergensen R]]
-
[[Category: Joergensen, R.]]
+
[[Category: Kinzy TG]]
-
[[Category: Kinzy, T.G.]]
+
[[Category: Nissen P]]
-
[[Category: Nissen, P.]]
+
[[Category: Ortiz PA]]
-
[[Category: Ortiz, P.A.]]
+
-
[[Category: SO1]]
+
-
[[Category: cis-proline]]
+
-
[[Category: g-protein]]
+
-
 
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 18 09:04:00 2007''
+

Current revision

Crystal structure of yeast elongation factor 2 in complex with sordarin

PDB ID 1n0u

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1n0u"
Personal tools