1n4l
From Proteopedia
(New page: 200px<br /> <applet load="1n4l" size="450" color="white" frame="true" align="right" spinBox="true" caption="1n4l, resolution 2.00Å" /> '''A DNA analogue of t...) |
|||
| Line 1: | Line 1: | ||
| - | [[Image:1n4l.gif|left|200px]]<br /> | + | [[Image:1n4l.gif|left|200px]]<br /><applet load="1n4l" size="350" color="white" frame="true" align="right" spinBox="true" |
| - | <applet load="1n4l" size=" | + | |
caption="1n4l, resolution 2.00Å" /> | caption="1n4l, resolution 2.00Å" /> | ||
'''A DNA analogue of the polypurine tract of HIV-1'''<br /> | '''A DNA analogue of the polypurine tract of HIV-1'''<br /> | ||
==Overview== | ==Overview== | ||
| - | The polypurine tract (PPT) from the HIV-1 genome is resistant to digestion | + | The polypurine tract (PPT) from the HIV-1 genome is resistant to digestion by reverse transcriptase following (-)-strand synthesis and is used to prime (+)-strand synthesis during retroviral replication. We have determined the crystal structure of the asymmetric DNA/DNA analog16-mer duplex (CTTTTTAAAAGAAAAG/CTTTTCTTTTAAAAAG) comprising most of the "visible" portion of the RNA:DNA hybrid from the polypurine tract of HIV-1, which was previously reported in a complex with HIV-1 reverse transcriptase. Our 16-mer completely encompasses a 10-mer DNA duplex analog of the HIV-1 PPT. We report here a detailed analysis of our B' form 16-mer DNA structure, including three full pure A-tracts, as well as a comparative structural analysis with polypurine tract and other A-tract-containing nucleic acid structures. Our analysis reveals that the polypurine tract structures share structural features despite being different nucleic acid forms (i.e. DNA:DNA versus RNA:DNA). In addition, the previously reported A-tract-containing DNA molecules bound to topoisomerase I are remarkably similar to our polypurine tract 16-mer structure. On the basis of our analysis, we suggest that the specific topology of long pure A-tracts is remarkably comparable across a wide array of biological environments. |
==About this Structure== | ==About this Structure== | ||
| - | 1N4L is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Moloney_murine_leukemia_virus Moloney murine leukemia virus]. Active as [http://en.wikipedia.org/wiki/RNA-directed_DNA_polymerase RNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.49 2.7.7.49] Full crystallographic information is available from [http:// | + | 1N4L is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Moloney_murine_leukemia_virus Moloney murine leukemia virus]. Active as [http://en.wikipedia.org/wiki/RNA-directed_DNA_polymerase RNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.49 2.7.7.49] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1N4L OCA]. |
==Reference== | ==Reference== | ||
| Line 15: | Line 14: | ||
[[Category: RNA-directed DNA polymerase]] | [[Category: RNA-directed DNA polymerase]] | ||
[[Category: Single protein]] | [[Category: Single protein]] | ||
| - | [[Category: Cote , M | + | [[Category: Cote , M L.]] |
| - | [[Category: Georgiadis, M | + | [[Category: Georgiadis, M M.]] |
[[Category: Pflomm, M.]] | [[Category: Pflomm, M.]] | ||
[[Category: mmlv rt; polypurine tract; hiv-1; asymmetric dna; protein-dna complex]] | [[Category: mmlv rt; polypurine tract; hiv-1; asymmetric dna; protein-dna complex]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:02:17 2008'' |
Revision as of 12:02, 21 February 2008
|
A DNA analogue of the polypurine tract of HIV-1
Overview
The polypurine tract (PPT) from the HIV-1 genome is resistant to digestion by reverse transcriptase following (-)-strand synthesis and is used to prime (+)-strand synthesis during retroviral replication. We have determined the crystal structure of the asymmetric DNA/DNA analog16-mer duplex (CTTTTTAAAAGAAAAG/CTTTTCTTTTAAAAAG) comprising most of the "visible" portion of the RNA:DNA hybrid from the polypurine tract of HIV-1, which was previously reported in a complex with HIV-1 reverse transcriptase. Our 16-mer completely encompasses a 10-mer DNA duplex analog of the HIV-1 PPT. We report here a detailed analysis of our B' form 16-mer DNA structure, including three full pure A-tracts, as well as a comparative structural analysis with polypurine tract and other A-tract-containing nucleic acid structures. Our analysis reveals that the polypurine tract structures share structural features despite being different nucleic acid forms (i.e. DNA:DNA versus RNA:DNA). In addition, the previously reported A-tract-containing DNA molecules bound to topoisomerase I are remarkably similar to our polypurine tract 16-mer structure. On the basis of our analysis, we suggest that the specific topology of long pure A-tracts is remarkably comparable across a wide array of biological environments.
About this Structure
1N4L is a Single protein structure of sequence from Moloney murine leukemia virus. Active as RNA-directed DNA polymerase, with EC number 2.7.7.49 Full crystallographic information is available from OCA.
Reference
Staying straight with A-tracts: a DNA analog of the HIV-1 polypurine tract., Cote ML, Pflomm M, Georgiadis MM, J Mol Biol. 2003 Jun 27;330(1):57-74. PMID:12818202
Page seeded by OCA on Thu Feb 21 14:02:17 2008
