1nbk
From Proteopedia
(New page: 200px<br /> <applet load="1nbk" size="450" color="white" frame="true" align="right" spinBox="true" caption="1nbk" /> '''The structure of RNA aptamer for HIV Tat co...) |
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'''The structure of RNA aptamer for HIV Tat complexed with two argininamide molecules'''<br /> | '''The structure of RNA aptamer for HIV Tat complexed with two argininamide molecules'''<br /> | ||
==Overview== | ==Overview== | ||
| - | An RNA aptamer containing two binding sites exhibits extremely high | + | An RNA aptamer containing two binding sites exhibits extremely high affinity to the HIV Tat protein. We have determined the structure of the aptamer complexed with two argininamide molecules. Two adjacent U:A:U base triples were formed, which widens the major groove to make space for the two argininamide molecules. The argininamide molecules bind to the G bases through hydrogen bonds. The binding is stabilized through stacking interactions. The structure of the aptamer complexed with a Tat-derived arginine-rich peptide was also characterized. It was suggested that the aptamer structure is similar for both complexes and that the aptamer interacts with two different arginine residues of the peptide simultaneously at the two binding sites, which could explain the high affinity to Tat. |
==About this Structure== | ==About this Structure== | ||
| - | 1NBK is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with GND as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http:// | + | 1NBK is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=GND:'>GND</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NBK OCA]. |
==Reference== | ==Reference== | ||
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[[Category: Katahira, M.]] | [[Category: Katahira, M.]] | ||
[[Category: Kobayashi, S.]] | [[Category: Kobayashi, S.]] | ||
| - | [[Category: Kumar, P | + | [[Category: Kumar, P K.R.]] |
[[Category: Matsugami, A.]] | [[Category: Matsugami, A.]] | ||
[[Category: Nishikawa, S.]] | [[Category: Nishikawa, S.]] | ||
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[[Category: rna-ligands complex]] | [[Category: rna-ligands complex]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:04:19 2008'' |
Revision as of 12:04, 21 February 2008
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The structure of RNA aptamer for HIV Tat complexed with two argininamide molecules
Overview
An RNA aptamer containing two binding sites exhibits extremely high affinity to the HIV Tat protein. We have determined the structure of the aptamer complexed with two argininamide molecules. Two adjacent U:A:U base triples were formed, which widens the major groove to make space for the two argininamide molecules. The argininamide molecules bind to the G bases through hydrogen bonds. The binding is stabilized through stacking interactions. The structure of the aptamer complexed with a Tat-derived arginine-rich peptide was also characterized. It was suggested that the aptamer structure is similar for both complexes and that the aptamer interacts with two different arginine residues of the peptide simultaneously at the two binding sites, which could explain the high affinity to Tat.
About this Structure
1NBK is a Protein complex structure of sequences from [1] with as ligand. Full crystallographic information is available from OCA.
Reference
Structural basis of the highly efficient trapping of the HIV Tat protein by an RNA aptamer., Matsugami A, Kobayashi S, Ouhashi K, Uesugi S, Yamamoto R, Taira K, Nishikawa S, Kumar PK, Katahira M, Structure. 2003 May;11(5):533-45. PMID:12737819
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