483d: Difference between revisions

Revision as of 22:19, 4 May 2008

CRYSTAL STRUCTURE OF THE SARCIN/RICIN DOMAIN FROM E. COLI 23 S RRNA

OverviewOverview

The sarcin/ricin domain of 23 S - 28 S ribosomal RNA is essential for protein synthesis because it forms a critical part of the binding site for elongation factors. A crystal structure of an RNA of 27 nucleotides that mimics the domain in Escherichia coli 23 S rRNA was determined at 1.11 A resolution. The domain folds into a hairpin distorted by four non-canonical base-pairs and one base triple. The fold is stabilized by cross-strand and intra-stand stacking; no intramolecular stabilizing metal ions are observed. This is the first structure to reveal in great detail the geometry and the hydration of two common motifs that are conserved in this rRNA domain, a GAGA tetraloop and a G-bulged cross-strand A stack. Differences in the region connecting these motifs to the stem in the E. coli and in the rat sarcin/ricin domains may contribute to the species-specific binding of elongation factors. Correlation of nucleotide protection data with the structure indicates that the domain has two surfaces. One surface is accessible, lies primarily in the major groove, and is likely to bind the elongation factors. The second lies primarily in the minor groove, and is likely to be buried in the ribosome. This minor groove surface includes the Watson-Crick faces of the cytosine bases in the unusual A2654.C2666 and U2653.C2667 water-mediated base-pairs.

About this StructureAbout this Structure

Full crystallographic information is available from OCA.

ReferenceReference

The two faces of the Escherichia coli 23 S rRNA sarcin/ricin domain: the structure at 1.11 A resolution., Correll CC, Wool IG, Munishkin A, J Mol Biol. 1999 Sep 17;292(2):275-87. PMID:10493875 Page seeded by OCA on Sun May 4 22:19:57 2008

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

OCA

@@ Line 1: / Line 1: @@
 [[Image:483d.jpg|left|200px]]
- {{Structure
+<!--
-|PDB= 483d |SIZE=350|CAPTION= <scene name='initialview01'>483d</scene>, resolution 1.11&Aring;
+The line below this paragraph, containing "STRUCTURE_483d", 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=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_483d|  PDB=483d  |  SCENE=  }}
-|RELATEDENTRY=
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=483d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=483d OCA], [http://www.ebi.ac.uk/pdbsum/483d PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=483d RCSB]</span>
-}}
 '''CRYSTAL STRUCTURE OF THE SARCIN/RICIN DOMAIN FROM E. COLI 23 S RRNA'''
@@ Line 19: / Line 16: @@
 ==About this Structure==
-D is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=483D OCA].
+Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=483D OCA].
 ==Reference==
 The two faces of the Escherichia coli 23 S rRNA sarcin/ricin domain: the structure at 1.11 A resolution., Correll CC, Wool IG, Munishkin A, J Mol Biol. 1999 Sep 17;292(2):275-87. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10493875 10493875]
-[[Category: Protein complex]]
 [[Category: Correll, C C.]]
 [[Category: Munishkin, A.]]
 [[Category: Wool, I G.]]
-[[Category: sacin/ricin domain rna recognition ribosomes elongation factors crystal structure]]
+[[Category: Sacin/ricin domain rna recognition ribosomes elongation factors crystal structure]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 22:19:57 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:37:44 2008''