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| [[Image:1sk5.gif|left|200px]] | | [[Image:1sk5.png|left|200px]] |
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| {{STRUCTURE_1sk5| PDB=1sk5 | SCENE= }} | | {{STRUCTURE_1sk5| PDB=1sk5 | SCENE= }} |
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| '''The ultra-high resolution structure of d(CTTTTAAAAG)2: modulation of bending by T-A steps and its role in DNA recognition'''
| | ===The ultra-high resolution structure of d(CTTTTAAAAG)2: modulation of bending by T-A steps and its role in DNA recognition=== |
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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.
| | The line below this paragraph, {{ABSTRACT_PUBMED_11173466}}, adds the Publication Abstract to the page |
| | (as it appears on PubMed at http://www.pubmed.gov), where 11173466 is the PubMed ID number. |
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| | {{ABSTRACT_PUBMED_11173466}} |
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| ==About this Structure== | | ==About this Structure== |
| Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1SK5 OCA]. | | [[1sk5]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1SK5 OCA]. |
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| ==Reference== | | ==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:[http://www.ncbi.nlm.nih.gov/pubmed/11173466 11173466]
| | <ref group="xtra">PMID:11173466</ref><ref group="xtra">PMID:14636594</ref><ref group="xtra">PMID:9223643</ref><references group="xtra"/> |
| [[Category: Dickerson, R E.]] | | [[Category: Dickerson, R E.]] |
| [[Category: Han, G W.]] | | [[Category: Han, G W.]] |
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| [[Category: Dna/dna double helix]] | | [[Category: Dna/dna double helix]] |
| [[Category: Popypurine tract sequence of hiv-1]] | | [[Category: Popypurine tract sequence of hiv-1]] |
| ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 08:48:20 2008''
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