1c4l: Difference between revisions

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[[~~Image~~:1c4l.~~png|left|200px~~]]

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

== Structural highlights ==

<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 [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1C4L FirstGlance]. <br>

</td></tr><tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1c4l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1c4l OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1c4l RCSB], [http://www.ebi.ac.uk/pdbsum/1c4l PDBsum]</span></td></tr>

<table>

== Publication Abstract from PubMed ==

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.

~~{{STRUCTURE_1c4l| PDB=1c4l | SCENE= }}~~

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>

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

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>

</div>

~~{{ABSTRACT_PUBMED_10852704}}~~

== References ==

==~~About this Structure~~==

__TOC__

~~[[1c4l]] is a 2 chain structure. Full experimental information is available from [http:~~//~~oca.weizmann.ac.il/oca-bin/ocashort?id=1C4L OCA].~~

</StructureSection>

[[Category: Kainosho, M.]]

[[Category: Kodama, T S.]]

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-[[Image:1c4l.png|left|200px]]
+==SOLUTION STRUCTURE OF AN RNA DUPLEX INCLUDING A C-U BASE-PAIR==
+<StructureSection load='1c4l' size='340' side='right' caption='[[1c4l]], [[NMR_Ensembles_of_Models | 1 NMR models]]' scene=''>
+== Structural highlights ==
+<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 [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1C4L FirstGlance]. <br>
+</td></tr><tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1c4l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1c4l OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1c4l RCSB], [http://www.ebi.ac.uk/pdbsum/1c4l PDBsum]</span></td></tr>
+<table>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+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.
-{{STRUCTURE_1c4l|  PDB=1c4l  |  SCENE=  }}
+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>
-===SOLUTION STRUCTURE OF AN RNA DUPLEX INCLUDING A C-U BASE-PAIR===
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
-{{ABSTRACT_PUBMED_10852704}}
+== References ==
+<references/>
-==About this Structure==
+__TOC__
-[[1c4l]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1C4L OCA].
+</StructureSection>
 [[Category: Kainosho, M.]]
 [[Category: Kodama, T S.]]