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1fix
From Proteopedia
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| - | [[Image:1fix.jpg|left|200px]] | + | [[Image:1fix.jpg|left|200px]] |
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| - | '''THE STRUCTURE OF AN RNA/DNA HYBRID: A SUBSTRATE OF THE RIBONUCLEASE ACTIVITY OF HIV-1 REVERSE TRANSCRIPTASE''' | + | {{Structure |
| + | |PDB= 1fix |SIZE=350|CAPTION= <scene name='initialview01'>1fix</scene>, resolution 2.300Å | ||
| + | |SITE= | ||
| + | |LIGAND= | ||
| + | |ACTIVITY= | ||
| + | |GENE= | ||
| + | }} | ||
| + | |||
| + | '''THE STRUCTURE OF AN RNA/DNA HYBRID: A SUBSTRATE OF THE RIBONUCLEASE ACTIVITY OF HIV-1 REVERSE TRANSCRIPTASE''' | ||
| + | |||
==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
| - | 1FIX is a [ | + | 1FIX is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FIX OCA]. |
==Reference== | ==Reference== | ||
| - | The structure of an RNA/DNA hybrid: a substrate of the ribonuclease activity of HIV-1 reverse transcriptase., Horton NC, Finzel BC, J Mol Biol. 1996 Dec 6;264(3):521-33. PMID:[http:// | + | The structure of an RNA/DNA hybrid: a substrate of the ribonuclease activity of HIV-1 reverse transcriptase., Horton NC, Finzel BC, J Mol Biol. 1996 Dec 6;264(3):521-33. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8969302 8969302] |
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
[[Category: Finzel, B C.]] | [[Category: Finzel, B C.]] | ||
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[[Category: right handed dna/rna hybrid]] | [[Category: right handed dna/rna hybrid]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 11:09:43 2008'' |
Revision as of 09:09, 20 March 2008
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| Coordinates: | save as pdb, mmCIF, xml | ||||||
THE STRUCTURE OF AN RNA/DNA HYBRID: A SUBSTRATE OF THE RIBONUCLEASE ACTIVITY OF HIV-1 REVERSE TRANSCRIPTASE
Overview
The structure of a complementary hybrid duplex of RNA and DNA has been determined by X-ray crystallography. A ten residue DNA oligonucleotide of sequence 5'-G-G-C-G-C-C-C-G-A-A-3' was annealed to complementary RNA (5'-u-u-c-g-g-g-c-g-c-c-3') and crystallized, producing tetragonal crystals that diffract to 2.3 A resolution. The hybrid adopts a geometry that is neither strictly A nor B-form, rather the helix possesses qualities of both, reminiscent of spectroscopic descriptions of a hybrid conformation, or H-form. All of the ribonucleotides maintain the C3'-endo conformation seen in A-form, while both C3'-endo and C2'-endo conformations are found in the deoxyribonucleotides. The minor groove width (8.5 to 10.5 A) is intermediate between standard values for A (11 A) and B-form (7.4 A) DNA. The global parameters rise and base-pairs tilt (or inclination) are like that of A-DNA, however the slide and x displacement (Dx) are more like that of A-RNA, thus giving the hybrid a unique conformation. In addition, the 10-mer crystallizes in a manner that allows the formation of dimers that stack end-to-end, thereby providing a glimpse of how an extended (20 base-pair) helix of RNA-DNA hybrid might appear. This duplex sequence was selected for study because it is specifically recognized by the ribonuclease H function of HIV reverse transcriptase. A structure of a substrate of this enzyme is of potential value in understanding requirements for the selectivity of this important drug target. The minor groove of the hybrid duplex, lined with the 2-OH of the ribose rings, is the single distinguishing characteristic of the RNA/DNA hybrid, undoubtedly an important structural feature conferring selectivity.
About this Structure
1FIX is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
The structure of an RNA/DNA hybrid: a substrate of the ribonuclease activity of HIV-1 reverse transcriptase., Horton NC, Finzel BC, J Mol Biol. 1996 Dec 6;264(3):521-33. PMID:8969302
Page seeded by OCA on Thu Mar 20 11:09:43 2008
