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PDBsum entry 1c4l
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References listed in PDB file
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Key reference
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Title
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Solution structure of an RNA duplex including a c-U base pair.
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Authors
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Y.Tanaka,
C.Kojima,
T.Yamazaki,
T.S.Kodama,
K.Yasuno,
S.Miyashita,
A.Ono,
A.Ono,
M.Kainosho,
Y.Kyogoku.
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Ref.
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Biochemistry, 2000,
39,
7074-7080.
[DOI no: ]
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PubMed id
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Abstract
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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.
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Secondary reference #1
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Title
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Structure model and physicochemical properties of the c-U mismatch pair in the double stranded RNA in solution.
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Authors
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Y.Tanaka,
C.Kojima,
T.Yamazaki,
Y.Kyogoku,
S.Miyashita,
A.Ono,
M.Kainosho.
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Ref.
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Nucleic Acids Symp Ser, 1997,
37,
271-272.
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PubMed id
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Headers
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