1old
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(New page: 200px<br /><applet load="1old" size="450" color="white" frame="true" align="right" spinBox="true" caption="1old" /> '''NMR STRUCTURE OF 24-MER DEOXYRIBONUCLEIC ACI...) |
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'''NMR STRUCTURE OF 24-MER DEOXYRIBONUCLEIC ACID, 7 STRUCTURES'''<br /> | '''NMR STRUCTURE OF 24-MER DEOXYRIBONUCLEIC ACID, 7 STRUCTURES'''<br /> | ||
==Overview== | ==Overview== | ||
| - | Here we present the first solution structure of a ligand-DNA aptamer | + | Here we present the first solution structure of a ligand-DNA aptamer complex. Our NMR-molecular dynamics structural studies of the interaction between argininamide and a DNA stem-loop complex establishes that the hairpin loop DNA binding site undergoes an adaptive conformational transition on complex formation. The tip of the DNA loop folds down towards the stem and sandwiches the bound argininamide between reversed Hoogsteen A.C and Watson-Crick G.C base pairs. The argininamide is encapsulated within the structured DNA loop and is stabilized by an intricate set of intermolecular hydrogen bonds and stacking interactions. The structure of the complex lays out the molecular principles defining both the architecture of the internal cavity and the recognition elements that could contribute to ligand discrimination. |
==About this Structure== | ==About this Structure== | ||
| - | 1OLD is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with ARM as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http:// | + | 1OLD is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=ARM:'>ARM</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OLD OCA]. |
==Reference== | ==Reference== | ||
Encapsulating an amino acid in a DNA fold., Lin CH, Patel DJ, Nat Struct Biol. 1996 Dec;3(12):1046-50. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=8946859 8946859] | Encapsulating an amino acid in a DNA fold., Lin CH, Patel DJ, Nat Struct Biol. 1996 Dec;3(12):1046-50. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=8946859 8946859] | ||
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
| - | [[Category: Lin, C | + | [[Category: Lin, C H.]] |
| - | [[Category: Patel, D | + | [[Category: Patel, D J.]] |
[[Category: ARM]] | [[Category: ARM]] | ||
[[Category: deoxyribonucleic acid]] | [[Category: deoxyribonucleic acid]] | ||
[[Category: dna]] | [[Category: dna]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:18:59 2008'' |
Revision as of 12:19, 21 February 2008
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NMR STRUCTURE OF 24-MER DEOXYRIBONUCLEIC ACID, 7 STRUCTURES
Overview
Here we present the first solution structure of a ligand-DNA aptamer complex. Our NMR-molecular dynamics structural studies of the interaction between argininamide and a DNA stem-loop complex establishes that the hairpin loop DNA binding site undergoes an adaptive conformational transition on complex formation. The tip of the DNA loop folds down towards the stem and sandwiches the bound argininamide between reversed Hoogsteen A.C and Watson-Crick G.C base pairs. The argininamide is encapsulated within the structured DNA loop and is stabilized by an intricate set of intermolecular hydrogen bonds and stacking interactions. The structure of the complex lays out the molecular principles defining both the architecture of the internal cavity and the recognition elements that could contribute to ligand discrimination.
About this Structure
1OLD is a Protein complex structure of sequences from [1] with as ligand. Full crystallographic information is available from OCA.
Reference
Encapsulating an amino acid in a DNA fold., Lin CH, Patel DJ, Nat Struct Biol. 1996 Dec;3(12):1046-50. PMID:8946859
Page seeded by OCA on Thu Feb 21 14:18:59 2008
