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1kod

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[[Image:1kod.jpg|left|200px]]
 
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==RNA APTAMER COMPLEXED WITH CITRULLINE, NMR==
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The line below this paragraph, containing "STRUCTURE_1kod", creates the "Structure Box" on the page.
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<StructureSection load='1kod' size='340' side='right'caption='[[1kod]]' 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'>[[1kod]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KOD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1KOD FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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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='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIR:CITRULLINE'>CIR</scene></td></tr>
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{{STRUCTURE_1kod| PDB=1kod | SCENE= }}
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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=1kod FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kod OCA], [https://pdbe.org/1kod PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1kod RCSB], [https://www.ebi.ac.uk/pdbsum/1kod PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1kod ProSAT]</span></td></tr>
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</table>
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'''RNA APTAMER COMPLEXED WITH CITRULLINE, NMR'''
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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==Overview==
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In a previous study, an RNA aptamer for the specific recognition of arginine was evolved from a parent sequence that bound citrulline specifically. The two RNAs differ at only 3 positions out of 44. The solution structures of the two aptamers complexed to their cognate amino acids have now been determined by two-dimensional nuclear magnetic resonance spectroscopy. Both aptamers contain two asymmetrical internal loops that are not well ordered in the free RNA but that fold into a compact structure upon ligand binding. Those nucleotides common to both RNAs include a conserved cluster of purine residues, three of which form an uneven plane containing a G:G pair, and two other residues nearly perpendicular to that surface. Two of the three variant nucleotides are stacked on the cluster of purines and form a triple contact to the amino acid side chain, whereas the edge of the third variant nucleotide is capping the binding pocket.
In a previous study, an RNA aptamer for the specific recognition of arginine was evolved from a parent sequence that bound citrulline specifically. The two RNAs differ at only 3 positions out of 44. The solution structures of the two aptamers complexed to their cognate amino acids have now been determined by two-dimensional nuclear magnetic resonance spectroscopy. Both aptamers contain two asymmetrical internal loops that are not well ordered in the free RNA but that fold into a compact structure upon ligand binding. Those nucleotides common to both RNAs include a conserved cluster of purine residues, three of which form an uneven plane containing a G:G pair, and two other residues nearly perpendicular to that surface. Two of the three variant nucleotides are stacked on the cluster of purines and form a triple contact to the amino acid side chain, whereas the edge of the third variant nucleotide is capping the binding pocket.
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==About this Structure==
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Structural basis of ligand discrimination by two related RNA aptamers resolved by NMR spectroscopy.,Yang Y, Kochoyan M, Burgstaller P, Westhof E, Famulok M Science. 1996 May 31;272(5266):1343-7. PMID:8650546<ref>PMID:8650546</ref>
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KOD 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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Structural basis of ligand discrimination by two related RNA aptamers resolved by NMR spectroscopy., Yang Y, Kochoyan M, Burgstaller P, Westhof E, Famulok M, Science. 1996 May 31;272(5266):1343-7. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8650546 8650546]
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</div>
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[[Category: Burgstaller, P.]]
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<div class="pdbe-citations 1kod" style="background-color:#fffaf0;"></div>
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[[Category: Famulok, M.]]
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== References ==
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[[Category: Kochoyan, M.]]
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<references/>
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[[Category: Westhof, E.]]
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__TOC__
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[[Category: Yang, Y S.]]
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</StructureSection>
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[[Category: In vitro selected rna]]
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[[Category: Large Structures]]
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[[Category: Rna aptamer]]
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[[Category: Burgstaller P]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 22:58:52 2008''
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[[Category: Famulok M]]
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[[Category: Kochoyan M]]
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[[Category: Westhof E]]
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[[Category: Yang YS]]

Current revision

RNA APTAMER COMPLEXED WITH CITRULLINE, NMR

PDB ID 1kod

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