1a3m
From Proteopedia
(New page: 200px<br /><applet load="1a3m" size="450" color="white" frame="true" align="right" spinBox="true" caption="1a3m" /> '''PAROMOMYCIN BINDING INDUCES A LOCAL CONFORMA...) |
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| - | [[Image:1a3m.gif|left|200px]]<br /><applet load="1a3m" size=" | + | [[Image:1a3m.gif|left|200px]]<br /><applet load="1a3m" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="1a3m" /> | caption="1a3m" /> | ||
'''PAROMOMYCIN BINDING INDUCES A LOCAL CONFORMATIONAL CHANGE IN THE A SITE OF 16S RRNA, NMR, 20 STRUCTURES'''<br /> | '''PAROMOMYCIN BINDING INDUCES A LOCAL CONFORMATIONAL CHANGE IN THE A SITE OF 16S RRNA, NMR, 20 STRUCTURES'''<br /> | ||
==Overview== | ==Overview== | ||
| - | Aminoglycoside antibiotics that bind to ribosomal RNA in the | + | Aminoglycoside antibiotics that bind to ribosomal RNA in the aminoacyl-tRNA site (A-site) cause misreading of the genetic code and inhibit translocation. An A-site RNA oligonucleotide specifically binds to aminoglycoside antibiotics and the structure of the RNA-paromomycin complex was previously determined by nuclear magnetic resonance (NMR) spectroscopy. Here, the A-site RNA structure in its free form has been determined using heteronuclear NMR and compared to the structure of the paromomycin-RNA complex. As in the complex with paromomycin, the asymmetric internal loop is closed by a Watson-Crick base-pair (C1407.G1494) and by two non-canonical base-pairs (U1406.U1495, A1408.A1493). A1492 stacks below A1493 and is intercalated between the upper and lower stems. The comparison of the free and bound conformations of the RNA shows that two universally conserved residues of the A site of 16 S rRNA, A1492 and A1493, are displaced towards the minor groove of the RNA helix in presence of antibiotic. These changes in the RNA conformation place the N1 positions of A1492 and A1493 on the minor groove side of the A-site RNA and suggest a mechanism of action of aminoglycosides on translation. |
==About this Structure== | ==About this Structure== | ||
| - | 1A3M 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:// | + | 1A3M 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=1A3M OCA]. |
==Reference== | ==Reference== | ||
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[[Category: Protein complex]] | [[Category: Protein complex]] | ||
[[Category: Fourmy, D.]] | [[Category: Fourmy, D.]] | ||
| - | [[Category: Puglisi, J | + | [[Category: Puglisi, J D.]] |
[[Category: Yoshizawa, S.]] | [[Category: Yoshizawa, S.]] | ||
[[Category: decoding region]] | [[Category: decoding region]] | ||
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[[Category: rna-ligand interaction]] | [[Category: rna-ligand interaction]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 11:40:29 2008'' |
Revision as of 09:40, 21 February 2008
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PAROMOMYCIN BINDING INDUCES A LOCAL CONFORMATIONAL CHANGE IN THE A SITE OF 16S RRNA, NMR, 20 STRUCTURES
Overview
Aminoglycoside antibiotics that bind to ribosomal RNA in the aminoacyl-tRNA site (A-site) cause misreading of the genetic code and inhibit translocation. An A-site RNA oligonucleotide specifically binds to aminoglycoside antibiotics and the structure of the RNA-paromomycin complex was previously determined by nuclear magnetic resonance (NMR) spectroscopy. Here, the A-site RNA structure in its free form has been determined using heteronuclear NMR and compared to the structure of the paromomycin-RNA complex. As in the complex with paromomycin, the asymmetric internal loop is closed by a Watson-Crick base-pair (C1407.G1494) and by two non-canonical base-pairs (U1406.U1495, A1408.A1493). A1492 stacks below A1493 and is intercalated between the upper and lower stems. The comparison of the free and bound conformations of the RNA shows that two universally conserved residues of the A site of 16 S rRNA, A1492 and A1493, are displaced towards the minor groove of the RNA helix in presence of antibiotic. These changes in the RNA conformation place the N1 positions of A1492 and A1493 on the minor groove side of the A-site RNA and suggest a mechanism of action of aminoglycosides on translation.
About this Structure
1A3M is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Paromomycin binding induces a local conformational change in the A-site of 16 S rRNA., Fourmy D, Yoshizawa S, Puglisi JD, J Mol Biol. 1998 Mar 27;277(2):333-45. PMID:9514734
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