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| - | [[Image:421d.gif|left|200px]] | + | {{Seed}} |
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| | {{STRUCTURE_421d| PDB=421d | SCENE= }} | | {{STRUCTURE_421d| PDB=421d | SCENE= }} |
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| - | '''5'-D(*TP*TP*CP*TP*TP*(BRO)CP*TP*TP*C)-3', 5'-R(*GP*AP*AP*GP*AP*AP*GP*AP*A)-3''''
| + | ===5'-D(*TP*TP*CP*TP*TP*(BRO)CP*TP*TP*C)-3', 5'-R(*GP*AP*AP*GP*AP*AP*GP*AP*A)-3'=== |
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| - | ==Overview==
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| - | Background:. DNA-RNA hybrids are substrates for RNase H. This enzyme catalyzes the hydrolysis of the RNA strand in the hybrid form. The polypurine tract (PPT) in human immunodeficiency virus 1 (HIV-1) is a short stretch of purines ( approximately 15 bases) located at the 3'-end of the U3 region of the RNA genome. The PPT has the unique ability to resist digestion by RNase H and serves as a primer for plus-strand DNA synthesis. Results:. The crystal structure of a DNA-RNA hybrid duplex containing a polypurine RNA strand, d(TTCTTBr5CTTC)-r(GAAGAAGAA), has been determined at 1.8 A resolution. The structure was solved by molecular replacement methods and refined to a final R factor of 20.1% (R free 23.7%). The hybrid duplex adopts a standard A-form conformation. All of the sugar rings and glycosidic torsion angles are found in the standard C3'-endo/anti conformation, as seen in A-RNA or A-DNA. The crystal packing is dominated by the DNA strand, where the terminal base pairs of the hybrid abut the neighboring A-DNA sugar-phosphate backbone on the minor groove side. Conclusions:. The present DNA-RNA hybrid duplex containing a polypurine RNA strand exhibits standard A-form geometry. This observation might suggest that the RNA PPT resists the RNase H activity of HIV reverse transcriptase as a result of its A-form conformation. In addition, there appears to be a correlation between the percentage purine content of the RNA and the DNA backbone conformation.
| + | The line below this paragraph, {{ABSTRACT_PUBMED_9862803}}, adds the Publication Abstract to the page |
| | + | (as it appears on PubMed at http://www.pubmed.gov), where 9862803 is the PubMed ID number. |
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| | + | {{ABSTRACT_PUBMED_9862803}} |
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| | ==About this Structure== | | ==About this Structure== |
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| | [[Category: Xiong, Y.]] | | [[Category: Xiong, Y.]] |
| | [[Category: Dna:rna hybrid duplex]] | | [[Category: Dna:rna hybrid duplex]] |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 22:16:59 2008'' | + | |
| | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Jul 3 13:17:09 2008'' |
Revision as of 10:17, 3 July 2008
Template:STRUCTURE 421d
5'-D(*TP*TP*CP*TP*TP*(BRO)CP*TP*TP*C)-3', 5'-R(*GP*AP*AP*GP*AP*AP*GP*AP*A)-3'
Template:ABSTRACT PUBMED 9862803
About this Structure
Full crystallographic information is available from OCA.
Reference
Crystal structure and conformation of a DNA-RNA hybrid duplex with a polypurine RNA strand: d(TTCTTBr5CTTC)-r(GAAGAAGAA)., Xiong Y, Sundaralingam M, Structure. 1998 Dec 15;6(12):1493-501. PMID:9862803
Page seeded by OCA on Thu Jul 3 13:17:09 2008
