1c4l
From Proteopedia
(New page: 200px<br /><applet load="1c4l" size="450" color="white" frame="true" align="right" spinBox="true" caption="1c4l" /> '''SOLUTION STRUCTURE OF AN RNA DUPLEX INCLUDIN...) |
|||
| Line 1: | Line 1: | ||
| - | [[Image:1c4l.gif|left|200px]]<br /><applet load="1c4l" size=" | + | [[Image:1c4l.gif|left|200px]]<br /><applet load="1c4l" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="1c4l" /> | caption="1c4l" /> | ||
'''SOLUTION STRUCTURE OF AN RNA DUPLEX INCLUDING A C-U BASE-PAIR'''<br /> | '''SOLUTION STRUCTURE OF AN RNA DUPLEX INCLUDING A C-U BASE-PAIR'''<br /> | ||
==Overview== | ==Overview== | ||
| - | The formation of the C-U base pair in a duplex was observed in solution by | + | 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. |
==About this Structure== | ==About this Structure== | ||
| - | 1C4L is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http:// | + | 1C4L is a [http://en.wikipedia.org/wiki/Protein_complex 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=1C4L OCA]. |
==Reference== | ==Reference== | ||
| Line 13: | Line 13: | ||
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
[[Category: Kainosho, M.]] | [[Category: Kainosho, M.]] | ||
| - | [[Category: Kodama, T | + | [[Category: Kodama, T S.]] |
[[Category: Kojima, C.]] | [[Category: Kojima, C.]] | ||
[[Category: Kyogoku, Y.]] | [[Category: Kyogoku, Y.]] | ||
[[Category: Miyashita, S.]] | [[Category: Miyashita, S.]] | ||
| - | [[Category: Ono, A | + | [[Category: Ono, A M.]] |
| - | [[Category: Ono, A | + | [[Category: Ono, A S.]] |
[[Category: Tanaka, Y.]] | [[Category: Tanaka, Y.]] | ||
[[Category: Yamazaki, T.]] | [[Category: Yamazaki, T.]] | ||
| Line 24: | Line 24: | ||
[[Category: c-u base pair]] | [[Category: c-u base pair]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 12:02:29 2008'' |
Revision as of 10:02, 21 February 2008
|
SOLUTION STRUCTURE OF AN RNA DUPLEX INCLUDING A C-U BASE-PAIR
Overview
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.
About this Structure
1C4L is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
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
Page seeded by OCA on Thu Feb 21 12:02:29 2008
