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.


430d

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (10:38, 1 March 2024) (edit) (undo)
 
(10 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:430d.gif|left|200px]]<br /><applet load="430d" size="350" color="white" frame="true" align="right" spinBox="true"
 
-
caption="430d, resolution 2.10&Aring;" />
 
-
'''STRUCTURE OF SARCIN/RICIN LOOP FROM RAT 28S RRNA'''<br />
 
-
==Overview==
+
==STRUCTURE OF SARCIN/RICIN LOOP FROM RAT 28S RRNA==
-
The structure of a 29-nucleotide RNA containing the sarcin/ricin loop (SRL) of rat 28 S rRNA has been determined at 2.1 A resolution. Recognition of the SRL by elongation factors and by the ribotoxins, sarcin and ricin, requires a nearly universal dodecamer sequence that folds into a G-bulged cross-strand A stack and a GAGA tetraloop. The juxtaposition of these two motifs forms a distorted hairpin structure that allows direct recognition of bases in both grooves as well as recognition of nonhelical backbone geometry and two 5'-unstacked purines. Comparisons with other RNA crystal structures establish the cross-strand A stack and the GNRA tetraloop as defined and modular RNA structural elements. The conserved region at the top is connected to the base of the domain by a region presumed to be flexible because of the sparsity of stabilizing contacts. Although the conformation of the SRL RNA previously determined by NMR spectroscopy is similar to the structure determined by x-ray crystallography, significant differences are observed in the "flexible" region and to a lesser extent in the G-bulged cross-strand A stack.
+
<StructureSection load='430d' size='340' side='right'caption='[[430d]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
-
 
+
== Structural highlights ==
-
==About this Structure==
+
<table><tr><td colspan='2'>[[430d]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=430D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=430D FirstGlance]. <br>
-
430D is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=MG:'>MG</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=430D OCA].
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1&#8491;</td></tr>
-
 
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CBV:5-BROMOCYTIDINE+5-(DIHYDROGEN+PHOSPHATE)'>CBV</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-
==Reference==
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=430d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=430d OCA], [https://pdbe.org/430d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=430d RCSB], [https://www.ebi.ac.uk/pdbsum/430d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=430d ProSAT]</span></td></tr>
-
Crystal structure of the ribosomal RNA domain essential for binding elongation factors., Correll CC, Munishkin A, Chan YL, Ren Z, Wool IG, Steitz TA, Proc Natl Acad Sci U S A. 1998 Nov 10;95(23):13436-41. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=9811818 9811818]
+
</table>
-
[[Category: Protein complex]]
+
__TOC__
-
[[Category: Chan, Y-L.]]
+
</StructureSection>
-
[[Category: Correll, C C.]]
+
[[Category: Large Structures]]
-
[[Category: Munishkin, A.]]
+
[[Category: Rattus norvegicus]]
-
[[Category: Ren, Z.]]
+
[[Category: Chan YL]]
-
[[Category: Steitz, T A.]]
+
[[Category: Correll CC]]
-
[[Category: Wool, I G.]]
+
[[Category: Munishkin A]]
-
[[Category: MG]]
+
[[Category: Ren Z]]
-
[[Category: base triple]]
+
[[Category: Steitz TA]]
-
[[Category: blunt stem]]
+
[[Category: Wool IG]]
-
[[Category: double helix]]
+
-
[[Category: hairpin]]
+
-
[[Category: ribonucleic acid]]
+
-
[[Category: tetraloop mismatched]]
+
-
[[Category: u-rna]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 19:12:11 2008''
+

Current revision

STRUCTURE OF SARCIN/RICIN LOOP FROM RAT 28S RRNA

PDB ID 430d

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/430d"
Personal tools