1i3x: Difference between revisions

From Proteopedia
Jump to navigationJump to search
← Older edit
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,331,615 edits
No edit summary
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,331,615 edits
No edit summary
 
(7 intermediate revisions by the same user not shown)
Line 1: Line 1:
{{Seed}}
[[Image:1i3x.png|left|200px]]


<!--
==SOLUTION STRUCTURE OF THE A LOOP OF 23S RIBOSOMAL RNA==
The line below this paragraph, containing "STRUCTURE_1i3x", creates the "Structure Box" on the page.
<StructureSection load='1i3x' size='340' side='right'caption='[[1i3x]]' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[1i3x]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1I3X OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1I3X FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</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=1i3x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1i3x OCA], [https://pdbe.org/1i3x PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1i3x RCSB], [https://www.ebi.ac.uk/pdbsum/1i3x PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1i3x ProSAT]</span></td></tr>
{{STRUCTURE_1i3x|  PDB=1i3x  |  SCENE=  }}
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The A loop is an essential RNA component of the ribosome peptidyltransferase center that directly interacts with aminoacyl (A)-site tRNA. The A loop is highly conserved and contains a ubiquitous 2'-O-methyl ribose modification at position U2552. Here, we present the solution structure of a modified and unmodified A-loop RNA to define both the A-loop fold and the structural impact of the U2552 modification. Solution data reveal that the A-loop RNA has a compact structure that includes a noncanonical base pair between C2556 and U2552. NMR evidence is presented that the N3 position of C2556 has a shifted pKa and that protonation at C2556-N3 changes the C-U pair geometry. Our data indicate that U2552 methylation modifies the A-loop fold, in particular the dynamics and position of residues C2556 and U2555. We compare our structural data with the structure of the A loop observed in a recent 50S crystal structure [Ban, N., Nissen, P., Hansen, J., Moore, P. B. &amp; Steitz, T. A. (2000) Science 289, 905--920; Nissen, P., Hansen, J., Ban, N., Moore, P. B. &amp; Steitz, T. A. (2000) Science 289, 920--930]. The solution and crystal structures of the A loop are dramatically different, suggesting that a structural rearrangement of the A loop must occur on docking into the peptidyltransferase center. Possible roles of this docking event, the shifted pKa of C2556 and the U2552 2'-O-methylation in the mechanism of translation, are discussed.


===SOLUTION STRUCTURE OF THE A LOOP OF 23S RIBOSOMAL RNA===
Solution structure of the A loop of 23S ribosomal RNA.,Blanchard SC, Puglisi JD Proc Natl Acad Sci U S A. 2001 Mar 27;98(7):3720-5. Epub 2001 Mar 20. PMID:11259644<ref>PMID:11259644</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
<!--
</div>
The line below this paragraph, {{ABSTRACT_PUBMED_11259644}}, adds the Publication Abstract to the page
<div class="pdbe-citations 1i3x" style="background-color:#fffaf0;"></div>
(as it appears on PubMed at http://www.pubmed.gov), where 11259644 is the PubMed ID number.
== References ==
-->
<references/>
{{ABSTRACT_PUBMED_11259644}}
__TOC__
 
</StructureSection>
==About this Structure==
[[Category: Large Structures]]
Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1I3X OCA].
[[Category: Blanchard SC]]
 
[[Category: Puglisi JD]]
==Reference==
Solution structure of the A loop of 23S ribosomal RNA., Blanchard SC, Puglisi JD, Proc Natl Acad Sci U S A. 2001 Mar 27;98(7):3720-5. Epub 2001 Mar 20. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11259644 11259644]
[[Category: Blanchard, S C.]]
[[Category: Puglisi, J D.]]
[[Category: 23s rrna]]
[[Category: A loop]]
[[Category: A site]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul  1 10:22:44 2008''
Retrieved from "https://proteopedia.org/1i3x"