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PDBsum entry 2fij
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References listed in PDB file
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Key reference
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Title
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2'-Fluoroarabino- And arabinonucleic acid show different conformations, Resulting in deviating RNA affinities and processing of their heteroduplexes with RNA by rnase h.
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Authors
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F.Li,
S.Sarkhel,
C.J.Wilds,
Z.Wawrzak,
T.P.Prakash,
M.Manoharan,
M.Egli.
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Ref.
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Biochemistry, 2006,
45,
4141-4152.
[DOI no: ]
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PubMed id
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Abstract
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2'-Deoxy-2'-fluoro-arabinonucleic acid (FANA) and arabinonucleic acid (ANA)
paired to RNA are substrates of RNase H. The conformation of the natural DNA/RNA
hybrid substrates appears to be neither A-form nor B-form. Consistent with this,
the conformations of FANA and ANA were found to be intermediate between the A-
and B-forms. However, FANA opposite RNA is preferred by RNase H over ANA, and
the RNA affinity of FANA considerably exceeds that of ANA. By investigating the
conformational boundaries of FANA and ANA residues in crystal structures of A-
and B-form DNA duplexes at atomic resolution, we demonstrate that FANA and ANA
display subtle conformational differences. The structural data provide insight
into the structural requirements at the catalytic site of RNase H. They also
allow conclusions with regard to the relative importance of stereoelectronic
effects and hydration as modulators of RNA affinity.
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Headers
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