1s1i: Difference between revisions

Revision as of 13:50, 30 April 2008

Structure of the ribosomal 80S-eEF2-sordarin complex from yeast obtained by docking atomic models for RNA and protein components into a 11.7 A cryo-EM map. This file, 1S1I, Contains 60S subunit. The 40S Ribosomal Subunit Is In File 1S1H.

OverviewOverview

An 11.7-A-resolution cryo-EM map of the yeast 80S.eEF2 complex in the presence of the antibiotic sordarin was interpreted in molecular terms, revealing large conformational changes within eEF2 and the 80S ribosome, including a rearrangement of the functionally important ribosomal intersubunit bridges. Sordarin positions domain III of eEF2 so that it can interact with the sarcin-ricin loop of 25S rRNA and protein rpS23 (S12p). This particular conformation explains the inhibitory action of sordarin and suggests that eEF2 is stalled on the 80S ribosome in a conformation that has similarities with the GTPase activation state. A ratchet-like subunit rearrangement (RSR) occurs in the 80S.eEF2.sordarin complex that, in contrast to Escherichia coli 70S ribosomes, is also present in vacant 80S ribosomes. A model is suggested, according to which the RSR is part of a mechanism for moving the tRNAs during the translocation reaction.

About this StructureAbout this Structure

1S1I is a Protein complex structure of sequences from Saccharomyces cerevisiae. Full crystallographic information is available from OCA.

ReferenceReference

Domain movements of elongation factor eEF2 and the eukaryotic 80S ribosome facilitate tRNA translocation., Spahn CM, Gomez-Lorenzo MG, Grassucci RA, Jorgensen R, Andersen GR, Beckmann R, Penczek PA, Ballesta JP, Frank J, EMBO J. 2004 Mar 10;23(5):1008-19. Epub 2004 Feb 19. PMID:14976550 Page seeded by OCA on Wed Apr 30 13:50:19 2008

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
 [[Image:1s1i.gif|left|200px]]
- {{Structure
+<!--
-|PDB= 1s1i |SIZE=350|CAPTION= <scene name='initialview01'>1s1i</scene>
+The line below this paragraph, containing "STRUCTURE_1s1i", creates the "Structure Box" on the page.
-|SITE=
+You may change the PDB parameter (which sets the PDB file loaded into the applet)
-|LIGAND= <scene name='pdbligand=A:ADENOSINE-5&#39;-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=C:CYTIDINE-5&#39;-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=G:GUANOSINE-5&#39;-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=T:THYMIDINE-5&#39;-MONOPHOSPHATE'>T</scene>, <scene name='pdbligand=U:URIDINE-5&#39;-MONOPHOSPHATE'>U</scene>
+or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-|ACTIVITY=
+or leave the SCENE parameter empty for the default display.
-|GENE=
+-->
-|DOMAIN=
+{{STRUCTURE_1s1i|  PDB=1s1i  |  SCENE=  }}
-|RELATEDENTRY=[[1k5x|1K5X]], [[1k5y|1K5Y]], [[1mms|1MMS]], [[1mzp|1MZP]], [[1ffk|1FFK]], [[1fjf|1FJF]], [[1fka|1FKA]], [[1gix|1GIX]], [[1giy|1GIY]], [[1nou|1NOU]], [[1s1h|1S1H]]
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1s1i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s1i OCA], [http://www.ebi.ac.uk/pdbsum/1s1i PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1s1i RCSB]</span>
-}}
 '''Structure of the ribosomal 80S-eEF2-sordarin complex from yeast obtained by docking atomic models for RNA and protein components into a 11.7 A cryo-EM map. This file, 1S1I, Contains 60S subunit. The 40S Ribosomal Subunit Is In File 1S1H.'''
@@ Line 36: / Line 33: @@
 [[Category: 60s ribosomal subunit]]
 [[Category: 80s ribosome]]
-[[Category: cryo-em]]
+[[Category: Cryo-em]]
-[[Category: eef2]]
+[[Category: Eef2]]
-[[Category: sordarin]]
+[[Category: Sordarin]]
-[[Category: trna translocation]]
+[[Category: Trna translocation]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Apr 30 13:50:19 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 23:35:58 2008''