1tqr
From Proteopedia
(New page: 200px<br /> <applet load="1tqr" size="450" color="white" frame="true" align="right" spinBox="true" caption="1tqr" /> '''NMR Structure of DNA 17-mer GGAAAATCTCTAGCA...) |
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'''NMR Structure of DNA 17-mer GGAAAATCTCTAGCAGT corresponding to the extremity of the U5 LTR of the HIV-1 genome'''<br /> | '''NMR Structure of DNA 17-mer GGAAAATCTCTAGCAGT corresponding to the extremity of the U5 LTR of the HIV-1 genome'''<br /> | ||
==Overview== | ==Overview== | ||
| - | The integration of the human immunodeficiency virus type 1 DNA into the | + | The integration of the human immunodeficiency virus type 1 DNA into the host cell genome is catalysed by the viral integrase (IN). The reaction consists of a 3'-processing [dinucleotide released from each 3' end of the viral long terminal repeat (LTR)] followed by a strand transfer (insertion of the viral genome into the human chromosome). A 17 base pair oligonucleotide d(GGAAAATCTCTAGCAGT), d(ACTGCTAGAGATTTTCC) reproducing the U5-LTR extremity of viral DNA that contains the IN attachment site was analysed by NMR using the classical NOEs and scalar coupling constants in conjunction with a small set of residual dipolar coupling constants (RDCs) measured at the 13C/15N natural abundance. The combination of these two types of parameters in calculations significantly improved the DNA structure determination. The well-known features of A-tracts were clearly identified by RDCs in the first part of the molecule. The binding/cleavage site at the viral DNA end is distinguishable by a loss of regular base stacking and a distorted minor groove that can aid its specific recognition by IN. |
==About this Structure== | ==About this Structure== | ||
| - | 1TQR is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http:// | + | 1TQR is a [http://en.wikipedia.org/wiki/Protein_complex 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=1TQR OCA]. |
==Reference== | ==Reference== | ||
Pre-organized structure of viral DNA at the binding-processing site of HIV-1 integrase., Renisio JG, Cosquer S, Cherrak I, El Antri S, Mauffret O, Fermandjian S, Nucleic Acids Res. 2005 Apr 6;33(6):1970-81. Print 2005. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15814814 15814814] | Pre-organized structure of viral DNA at the binding-processing site of HIV-1 integrase., Renisio JG, Cosquer S, Cherrak I, El Antri S, Mauffret O, Fermandjian S, Nucleic Acids Res. 2005 Apr 6;33(6):1970-81. Print 2005. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15814814 15814814] | ||
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
| - | [[Category: Antri, S | + | [[Category: Antri, S El.]] |
[[Category: Cherrak, I.]] | [[Category: Cherrak, I.]] | ||
[[Category: Cosquer, S.]] | [[Category: Cosquer, S.]] | ||
[[Category: Fermandjian, S.]] | [[Category: Fermandjian, S.]] | ||
[[Category: Mauffret, O.]] | [[Category: Mauffret, O.]] | ||
| - | [[Category: Renisio, J | + | [[Category: Renisio, J G.]] |
[[Category: double helix]] | [[Category: double helix]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 15:16:25 2008'' |
Revision as of 13:16, 21 February 2008
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NMR Structure of DNA 17-mer GGAAAATCTCTAGCAGT corresponding to the extremity of the U5 LTR of the HIV-1 genome
Overview
The integration of the human immunodeficiency virus type 1 DNA into the host cell genome is catalysed by the viral integrase (IN). The reaction consists of a 3'-processing [dinucleotide released from each 3' end of the viral long terminal repeat (LTR)] followed by a strand transfer (insertion of the viral genome into the human chromosome). A 17 base pair oligonucleotide d(GGAAAATCTCTAGCAGT), d(ACTGCTAGAGATTTTCC) reproducing the U5-LTR extremity of viral DNA that contains the IN attachment site was analysed by NMR using the classical NOEs and scalar coupling constants in conjunction with a small set of residual dipolar coupling constants (RDCs) measured at the 13C/15N natural abundance. The combination of these two types of parameters in calculations significantly improved the DNA structure determination. The well-known features of A-tracts were clearly identified by RDCs in the first part of the molecule. The binding/cleavage site at the viral DNA end is distinguishable by a loss of regular base stacking and a distorted minor groove that can aid its specific recognition by IN.
About this Structure
1TQR is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Pre-organized structure of viral DNA at the binding-processing site of HIV-1 integrase., Renisio JG, Cosquer S, Cherrak I, El Antri S, Mauffret O, Fermandjian S, Nucleic Acids Res. 2005 Apr 6;33(6):1970-81. Print 2005. PMID:15814814
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