1a3m

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[[Image:1a3m.gif|left|200px]]
 
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==PAROMOMYCIN BINDING INDUCES A LOCAL CONFORMATIONAL CHANGE IN THE A SITE OF 16S RRNA, NMR, 20 STRUCTURES==
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The line below this paragraph, containing "STRUCTURE_1a3m", creates the "Structure Box" on the page.
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<StructureSection load='1a3m' size='340' side='right'caption='[[1a3m]]' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[1a3m]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1A3M OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1A3M FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1a3m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1a3m OCA], [https://pdbe.org/1a3m PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1a3m RCSB], [https://www.ebi.ac.uk/pdbsum/1a3m PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1a3m ProSAT]</span></td></tr>
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{{STRUCTURE_1a3m| PDB=1a3m | SCENE= }}
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</table>
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<div style="background-color:#fffaf0;">
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'''PAROMOMYCIN BINDING INDUCES A LOCAL CONFORMATIONAL CHANGE IN THE A SITE OF 16S RRNA, NMR, 20 STRUCTURES'''
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== Publication Abstract from PubMed ==
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==Overview==
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Aminoglycoside antibiotics that bind to ribosomal RNA in the aminoacyl-tRNA site (A-site) cause misreading of the genetic code and inhibit translocation. An A-site RNA oligonucleotide specifically binds to aminoglycoside antibiotics and the structure of the RNA-paromomycin complex was previously determined by nuclear magnetic resonance (NMR) spectroscopy. Here, the A-site RNA structure in its free form has been determined using heteronuclear NMR and compared to the structure of the paromomycin-RNA complex. As in the complex with paromomycin, the asymmetric internal loop is closed by a Watson-Crick base-pair (C1407.G1494) and by two non-canonical base-pairs (U1406.U1495, A1408.A1493). A1492 stacks below A1493 and is intercalated between the upper and lower stems. The comparison of the free and bound conformations of the RNA shows that two universally conserved residues of the A site of 16 S rRNA, A1492 and A1493, are displaced towards the minor groove of the RNA helix in presence of antibiotic. These changes in the RNA conformation place the N1 positions of A1492 and A1493 on the minor groove side of the A-site RNA and suggest a mechanism of action of aminoglycosides on translation.
Aminoglycoside antibiotics that bind to ribosomal RNA in the aminoacyl-tRNA site (A-site) cause misreading of the genetic code and inhibit translocation. An A-site RNA oligonucleotide specifically binds to aminoglycoside antibiotics and the structure of the RNA-paromomycin complex was previously determined by nuclear magnetic resonance (NMR) spectroscopy. Here, the A-site RNA structure in its free form has been determined using heteronuclear NMR and compared to the structure of the paromomycin-RNA complex. As in the complex with paromomycin, the asymmetric internal loop is closed by a Watson-Crick base-pair (C1407.G1494) and by two non-canonical base-pairs (U1406.U1495, A1408.A1493). A1492 stacks below A1493 and is intercalated between the upper and lower stems. The comparison of the free and bound conformations of the RNA shows that two universally conserved residues of the A site of 16 S rRNA, A1492 and A1493, are displaced towards the minor groove of the RNA helix in presence of antibiotic. These changes in the RNA conformation place the N1 positions of A1492 and A1493 on the minor groove side of the A-site RNA and suggest a mechanism of action of aminoglycosides on translation.
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==About this Structure==
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Paromomycin binding induces a local conformational change in the A-site of 16 S rRNA.,Fourmy D, Yoshizawa S, Puglisi JD J Mol Biol. 1998 Mar 27;277(2):333-45. PMID:9514734<ref>PMID:9514734</ref>
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1A3M OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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Paromomycin binding induces a local conformational change in the A-site of 16 S rRNA., Fourmy D, Yoshizawa S, Puglisi JD, J Mol Biol. 1998 Mar 27;277(2):333-45. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9514734 9514734]
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</div>
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[[Category: Fourmy, D.]]
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<div class="pdbe-citations 1a3m" style="background-color:#fffaf0;"></div>
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[[Category: Puglisi, J D.]]
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== References ==
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[[Category: Yoshizawa, S.]]
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<references/>
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[[Category: Decoding region]]
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__TOC__
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[[Category: Nmr]]
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</StructureSection>
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[[Category: Ribosomal rna complex]]
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[[Category: Large Structures]]
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[[Category: Rna-ligand interaction]]
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[[Category: Fourmy D]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 09:45:49 2008''
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[[Category: Puglisi JD]]
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[[Category: Yoshizawa S]]

Current revision

PAROMOMYCIN BINDING INDUCES A LOCAL CONFORMATIONAL CHANGE IN THE A SITE OF 16S RRNA, NMR, 20 STRUCTURES

PDB ID 1a3m

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