1fyo

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[[Image:1fyo.gif|left|200px]]
 
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{{Structure
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==EUKARYOTIC DECODING REGION A-SITE RNA==
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|PDB= 1fyo |SIZE=350|CAPTION= <scene name='initialview01'>1fyo</scene>
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<StructureSection load='1fyo' size='340' side='right'caption='[[1fyo]]' scene=''>
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|SITE=
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== Structural highlights ==
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|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>
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<table><tr><td colspan='2'>[[1fyo]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FYO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1FYO FirstGlance]. <br>
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|ACTIVITY=
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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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|GENE=
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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=1fyo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fyo OCA], [https://pdbe.org/1fyo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1fyo RCSB], [https://www.ebi.ac.uk/pdbsum/1fyo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1fyo ProSAT]</span></td></tr>
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|DOMAIN=
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</table>
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|RELATEDENTRY=[[1fyp|1FYP]], [[1a3m|1A3M]], [[1pbr|1PBR]]
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<div style="background-color:#fffaf0;">
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1fyo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fyo OCA], [http://www.ebi.ac.uk/pdbsum/1fyo PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1fyo RCSB]</span>
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== Publication Abstract from PubMed ==
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}}
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'''EUKARYOTIC DECODING REGION A-SITE RNA'''
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==Overview==
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The aminoglycoside antibiotics target a region of highly conserved nucleotides in the aminoacyl-tRNA site (A site) of 16 S RNA on the 30 S subunit. The structures of a prokaryotic decoding region A-site oligonucleotide free in solution and bound to the aminoglycosides paromomycin and gentamicin C1A have been determined. Here, the structure of a eukaryotic decoding region A-site oligonucleotide has been determined using homonuclear and heteronuclear NMR spectroscopy, and compared to the unbound prokaryotic rRNA structure. The two structures are similar, with a U1406-U1495 base-pair, a C1407-G1494 Watson-Crick base-pair, and a G1408-A1493 base-pair instead of the A1408-A1493 base-pair of the prokaryotic structure. The two structures differ in the orientation of the 1408 position with respect to A1493; G1408 is rotated toward the major groove, which is the binding pocket for aminoglycosides. The structures also differ in the stacking geometry of G1494 on A1493, which could have slight long-range conformational effects.
The aminoglycoside antibiotics target a region of highly conserved nucleotides in the aminoacyl-tRNA site (A site) of 16 S RNA on the 30 S subunit. The structures of a prokaryotic decoding region A-site oligonucleotide free in solution and bound to the aminoglycosides paromomycin and gentamicin C1A have been determined. Here, the structure of a eukaryotic decoding region A-site oligonucleotide has been determined using homonuclear and heteronuclear NMR spectroscopy, and compared to the unbound prokaryotic rRNA structure. The two structures are similar, with a U1406-U1495 base-pair, a C1407-G1494 Watson-Crick base-pair, and a G1408-A1493 base-pair instead of the A1408-A1493 base-pair of the prokaryotic structure. The two structures differ in the orientation of the 1408 position with respect to A1493; G1408 is rotated toward the major groove, which is the binding pocket for aminoglycosides. The structures also differ in the stacking geometry of G1494 on A1493, which could have slight long-range conformational effects.
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==About this Structure==
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Structure of a eukaryotic decoding region A-site RNA.,Lynch SR, Puglisi JD J Mol Biol. 2001 Mar 9;306(5):1023-35. PMID:11237616<ref>PMID:11237616</ref>
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1FYO 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=1FYO OCA].
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==Reference==
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Structure of a eukaryotic decoding region A-site RNA., Lynch SR, Puglisi JD, J Mol Biol. 2001 Mar 9;306(5):1023-35. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11237616 11237616]
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[[Category: Protein complex]]
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[[Category: Lynch, S R.]]
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[[Category: Puglisi, J D.]]
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[[Category: bulged some]]
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[[Category: g-a base pair]]
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[[Category: stem-internal loop-stem-tetraloop rna]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 20:32:50 2008''
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 1fyo" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
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[[Category: Lynch SR]]
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[[Category: Puglisi JD]]

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EUKARYOTIC DECODING REGION A-SITE RNA

PDB ID 1fyo

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