2oe8: Difference between revisions

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-{{Seed}}
-[[Image:2oe8.png|left|200px]]
-<!--
+==1.8 A X-ray crystal structure of Apramycin complex with RNA fragment GGGCGUCGCUAGUACC/CGGUACUAAAAGUCGCC containing the human ribosomal decoding A site: RNA construct with 5'-overhang==
-The line below this paragraph, containing "STRUCTURE_2oe8", creates the "Structure Box" on the page.
+<StructureSection load='2oe8' size='340' side='right'caption='[[2oe8]], [[Resolution|resolution]] 1.80&Aring;' 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'>[[2oe8]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OE8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2OE8 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">X-ray diffraction, [[Resolution|Resolution]] 1.8&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AM2:APRAMYCIN'>AM2</scene></td></tr>
-{{STRUCTURE_2oe8|  PDB=2oe8  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2oe8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oe8 OCA], [https://pdbe.org/2oe8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2oe8 RCSB], [https://www.ebi.ac.uk/pdbsum/2oe8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2oe8 ProSAT]</span></td></tr>
+</table>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Aminoglycoside antibiotics bind specifically to the bacterial ribosomal decoding-site RNA and thereby interfere with fidelity but not efficiency of translation. Apramycin stands out among aminoglycosides for its mechanism of action which is based on blocking translocation and its ability to bind also to the eukaryotic decoding site despite differences in key residues required for apramycin recognition by the bacterial target. To elucidate molecular recognition of the eukaryotic decoding site by apramycin we have determined the crystal structure of an oligoribonucleotide containing the human sequence free and in complex with the antibiotic at 1.5 A resolution. The drug binds in the deep groove of the RNA which forms a continuously stacked helix comprising non-canonical C.A and G.A base pairs and a bulged-out adenine. The binding mode of apramycin at the human decoding-site RNA is distinct from aminoglycoside recognition of the bacterial target, suggesting a molecular basis for the actions of apramycin in eukaryotes and bacteria.
-===1.8 A X-ray crystal structure of Apramycin complex with RNA fragment GGGCGUCGCUAGUACC/CGGUACUAAAAGUCGCC containing the human ribosomal decoding A site: RNA construct with 5'-overhang===
+Apramycin recognition by the human ribosomal decoding site.,Hermann T, Tereshko V, Skripkin E, Patel DJ Blood Cells Mol Dis. 2007 May-Jun;38(3):193-8. Epub 2007 Jan 29. PMID:17258916<ref>PMID:17258916</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_17258916}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 2oe8" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 17258916 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_17258916}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OE8 OCA].
+[[Category: Hermann T]]
+[[Category: Patel DJ]]
-==Reference==
+[[Category: Skripkin E]]
-Apramycin recognition by the human ribosomal decoding site., Hermann T, Tereshko V, Skripkin E, Patel DJ, Blood Cells Mol Dis. 2007 May-Jun;38(3):193-8. Epub 2007 Jan 29. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17258916 17258916]
+[[Category: Tereshko V]]
-[[Category: Hermann, T.]]
-[[Category: Patel, D J.]]
-[[Category: Skripkin, E.]]
-[[Category: Tereshko, V.]]
-[[Category: A site]]
-[[Category: Aminoglycoside antibiotic]]
-[[Category: Apramycin]]
-[[Category: Homo sapien]]
-[[Category: Ribosomal decoding site]]
-[[Category: Rna duplex]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 08:12:36 2008''