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1p79

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[[Image:1p79.gif|left|200px]]
 
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==Crystal structure of a bulged RNA tetraplex: implications for a novel binding site in RNA tetraplex==
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The line below this paragraph, containing "STRUCTURE_1p79", creates the "Structure Box" on the page.
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<StructureSection load='1p79' size='340' side='right'caption='[[1p79]], [[Resolution|resolution]] 1.10&Aring;' 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'>[[1p79]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1P79 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1P79 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">X-ray diffraction, [[Resolution|Resolution]] 1.1&#8491;</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=K:POTASSIUM+ION'>K</scene></td></tr>
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{{STRUCTURE_1p79| PDB=1p79 | 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=1p79 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1p79 OCA], [https://pdbe.org/1p79 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1p79 RCSB], [https://www.ebi.ac.uk/pdbsum/1p79 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1p79 ProSAT]</span></td></tr>
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</table>
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'''Crystal structure of a bulged RNA tetraplex: implications for a novel binding site in RNA tetraplex'''
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
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==Overview==
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[[Category: Pan B]]
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Bulges are an important structural motif in RNA and can be used as recognition and interaction sites in RNA-protein interaction and RNA-RNA interaction. Here we report the first crystal structure of a bulged RNA tetraplex at 1.1 A resolution. The hexamer r(U)(BrdG)r(UGGU) forms a parallel tetraplex with the uridine sandwiched by guanines bulging out. The bulged uridine adopts the syn glycosidic conformation and its O2 and N3 atoms face outwards, serving as an effective recognition and interaction site. The bulge formation both widens the groove width and changes the groove hydrogen-bonding pattern on its 5' side. However, the bulge does not make any bends or kinks in the tetraplex structure. The present study demonstrates the dramatic difference between uridine and guanine in forming tetraplex structure. In addition, both G(syn) tetrad and G(anti) tetrad have been observed. They display the same base-pairing pattern and similar C1'-C1' distance but different hydrogen-bonding patterns in the groove.
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[[Category: Shi K]]
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[[Category: Sundaralingam M]]
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==About this Structure==
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[[Category: Xiong Y]]
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1P79 OCA].
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==Reference==
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Crystal structure of a bulged RNA tetraplex at 1.1 a resolution: implications for a novel binding site in RNA tetraplex., Pan B, Xiong Y, Shi K, Sundaralingam M, Structure. 2003 Nov;11(11):1423-30. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/14604532 14604532]
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[[Category: Pan, B.]]
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[[Category: Shi, K.]]
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[[Category: Sundaralingam, M.]]
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[[Category: Xiong, Y.]]
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[[Category: Bulge]]
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[[Category: Rna]]
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[[Category: Tetraplex]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 04:46:21 2008''
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Current revision

Crystal structure of a bulged RNA tetraplex: implications for a novel binding site in RNA tetraplex

PDB ID 1p79

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