1jb8

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{{STRUCTURE_1jb8| PDB=1jb8 | SCENE= }}
{{STRUCTURE_1jb8| PDB=1jb8 | SCENE= }}
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'''The Crystal Structure of an RNA/DNA Hybrid Reveals Novel Intermolecular Intercalation'''
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===The Crystal Structure of an RNA/DNA Hybrid Reveals Novel Intermolecular Intercalation===
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==Overview==
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An intermolecular intercalation of base pairs was found at the CA step in the I222 crystal structure of the RNA.DNA hybrid, r(CAAAGAAAAG).d(CTTTTCTTTG), which contains two-thirds of the polypurine tract sequence of HIV-1 with a substitution of cytosine for the initial adenine. This sequence crystallized in both P212121 and I222 space groups, with an rms difference of only 0.63 A between residues 3 to 18 of the two forms. P212121 and I222 helices are both A-like, but intercalation occurs only in the I222 crystal form. The present structure shows bases stacked in parallel rather than perpendicular as in intercalated DNA (I-DNA). The base intercalation is also different from zipper-like meshing of bases seen in the center of the crystal structure of d(GCGAAAGCT), which does not have Watson-Crick base pairing. The base-step intercalation seen here is reminiscent of domain swapping in proteins; therefore, we call this phenomenon "base-pair swapping." It involves a highly mobile CA step and seems to be sequence-specific and electrostatically stable without disrupting Watson-Crick interactions. It also exhibits a large rise concurrent with unwinding of the helix (low twist). We present a base-pair swapping dimer in nucleic acids.
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{{ABSTRACT_PUBMED_12872000}}
==About this Structure==
==About this Structure==
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[[Category: Rna/dna hybrid]]
[[Category: Rna/dna hybrid]]
[[Category: Rna/dna polypurine tract]]
[[Category: Rna/dna polypurine tract]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 21:00:29 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 1 19:57:27 2008''

Revision as of 16:57, 1 July 2008

Image:1jb8.png

Template:STRUCTURE 1jb8

The Crystal Structure of an RNA/DNA Hybrid Reveals Novel Intermolecular Intercalation

Template:ABSTRACT PUBMED 12872000

About this Structure

Full crystallographic information is available from OCA.

Reference

Crystal structure of an RNA.DNA hybrid reveals intermolecular intercalation: dimer formation by base-pair swapping., Han GW, Kopka ML, Langs D, Sawaya MR, Dickerson RE, Proc Natl Acad Sci U S A. 2003 Aug 5;100(16):9214-9. Epub 2003 Jul 18. PMID:12872000

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