1g4q

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{{STRUCTURE_1g4q| PDB=1g4q | SCENE= }}
{{STRUCTURE_1g4q| PDB=1g4q | SCENE= }}
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'''RNA/DNA HYBRID DECAMER OF CAAAGAAAAG/CTTTTCTTTG'''
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===RNA/DNA HYBRID DECAMER OF CAAAGAAAAG/CTTTTCTTTG===
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==Overview==
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For the first time, ab initio direct methods have been used to solve the crystal structure of an RNA/DNA hybrid decamer. The RNA/DNA sequence corresponds to the leftmost two-thirds of the polypurine tract (PPT), the primer for second-strand DNA synthesis by HIV-1 reverse transcriptase (RT). Direct methods using Shake-and-Bake (SnB) yielded solutions for the RNA/DNA decamer molecule using 1.15 A data, which is just on the resolution edge of what might work with direct methods. Atomic positions for 96% of the entire molecule, containing 514 non-H atoms including three Ca(2+) ions, were easily interpreted from a Fourier map based on the 'Shake-and-Bake' minimal function and CROQUE phase-refinement program. Only six atoms, primarily in the sugar linkage, were missing in this Fourier map. At present, the R factor of the model is 0.143 (R(free) = 0.186) for the 562 non-H atom sites located. The conformation of the RNA/DNA helix is A-form, with a typical A-helix minor-groove width. This paper presents the methodology used in solving this structure.
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The line below this paragraph, {{ABSTRACT_PUBMED_11173466}}, adds the Publication Abstract to the page
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(as it appears on PubMed at http://www.pubmed.gov), where 11173466 is the PubMed ID number.
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{{ABSTRACT_PUBMED_11173466}}
==About this Structure==
==About this Structure==
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[[Category: Polypurine tract of hiv-1]]
[[Category: Polypurine tract of hiv-1]]
[[Category: Rna/dna hybrid]]
[[Category: Rna/dna hybrid]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 17:08:14 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 1 04:24:38 2008''

Revision as of 01:24, 1 July 2008

Image:1g4q.png

Template:STRUCTURE 1g4q

RNA/DNA HYBRID DECAMER OF CAAAGAAAAG/CTTTTCTTTG

Template:ABSTRACT PUBMED 11173466

About this Structure

Full crystallographic information is available from OCA.

Reference

Direct-methods determination of an RNA/DNA hybrid decamer at 1.15 A resolution., Han GW, Acta Crystallogr D Biol Crystallogr. 2001 Feb;57(Pt 2):213-8. PMID:11173466

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