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1c4l

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[[Image:1c4l.gif|left|200px]]
 
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==SOLUTION STRUCTURE OF AN RNA DUPLEX INCLUDING A C-U BASE-PAIR==
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The line below this paragraph, containing "STRUCTURE_1c4l", creates the "Structure Box" on the page.
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<StructureSection load='1c4l' size='340' side='right'caption='[[1c4l]]' 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'>[[1c4l]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1C4L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1C4L 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=1c4l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1c4l OCA], [https://pdbe.org/1c4l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1c4l RCSB], [https://www.ebi.ac.uk/pdbsum/1c4l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1c4l ProSAT]</span></td></tr>
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{{STRUCTURE_1c4l| PDB=1c4l | SCENE= }}
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</table>
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<div style="background-color:#fffaf0;">
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'''SOLUTION STRUCTURE OF AN RNA DUPLEX INCLUDING A C-U BASE-PAIR'''
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== Publication Abstract from PubMed ==
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==Overview==
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The formation of the C-U base pair in a duplex was observed in solution by means of the temperature profile of (15)N chemical shifts, and the precise geometry of the C-U base pair was also determined by NOE-based structure calculation. From the solution structure of the RNA oligomer, r[CGACUCAGG].r[CCUGCGUCG], it was found that a single C-U mismatch preferred being stacked in the duplex rather than being flipped-out even in solution. Moreover, it adopts an irregular geometry, where the amino nitrogen (N4) of the cytidine and keto-oxygen (O4) of the uridine are within hydrogen-bonding distance, as seen in crystals. To further prove the presence of a hydrogen bond in the C-U pair, we employed a point-labeled cytidine at the exocyclic amino nitrogen of the cytidine in the C-U pair. The temperature profile of its (15)N chemical shift showed a sigmoidal transition curve, indicating the presence of a hydrogen bond in the C-U pair in the duplex.
The formation of the C-U base pair in a duplex was observed in solution by means of the temperature profile of (15)N chemical shifts, and the precise geometry of the C-U base pair was also determined by NOE-based structure calculation. From the solution structure of the RNA oligomer, r[CGACUCAGG].r[CCUGCGUCG], it was found that a single C-U mismatch preferred being stacked in the duplex rather than being flipped-out even in solution. Moreover, it adopts an irregular geometry, where the amino nitrogen (N4) of the cytidine and keto-oxygen (O4) of the uridine are within hydrogen-bonding distance, as seen in crystals. To further prove the presence of a hydrogen bond in the C-U pair, we employed a point-labeled cytidine at the exocyclic amino nitrogen of the cytidine in the C-U pair. The temperature profile of its (15)N chemical shift showed a sigmoidal transition curve, indicating the presence of a hydrogen bond in the C-U pair in the duplex.
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==About this Structure==
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Solution structure of an RNA duplex including a C-U base pair.,Tanaka Y, Kojima C, Yamazaki T, Kodama TS, Yasuno K, Miyashita S, Ono A, Ono A, Kainosho M, Kyogoku Y Biochemistry. 2000 Jun 20;39(24):7074-80. PMID:10852704<ref>PMID:10852704</ref>
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1C4L 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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Solution structure of an RNA duplex including a C-U base pair., Tanaka Y, Kojima C, Yamazaki T, Kodama TS, Yasuno K, Miyashita S, Ono A, Ono A, Kainosho M, Kyogoku Y, Biochemistry. 2000 Jun 20;39(24):7074-80. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10852704 10852704]
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</div>
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[[Category: Kainosho, M.]]
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<div class="pdbe-citations 1c4l" style="background-color:#fffaf0;"></div>
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[[Category: Kodama, T S.]]
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== References ==
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[[Category: Kojima, C.]]
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<references/>
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[[Category: Kyogoku, Y.]]
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__TOC__
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[[Category: Miyashita, S.]]
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</StructureSection>
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[[Category: Ono, A M.]]
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[[Category: Large Structures]]
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[[Category: Ono, A S.]]
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[[Category: Kainosho M]]
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[[Category: Tanaka, Y.]]
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[[Category: Kodama TS]]
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[[Category: Yamazaki, T.]]
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[[Category: Kojima C]]
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[[Category: Yasuno, K.]]
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[[Category: Kyogoku Y]]
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[[Category: C-u base pair]]
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[[Category: Miyashita S]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 12:19:17 2008''
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[[Category: Ono AM]]
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[[Category: Ono AS]]
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[[Category: Tanaka Y]]
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[[Category: Yamazaki T]]
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[[Category: Yasuno K]]

Current revision

SOLUTION STRUCTURE OF AN RNA DUPLEX INCLUDING A C-U BASE-PAIR

PDB ID 1c4l

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