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1fyp

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[[Image:1fyp.gif|left|200px]]
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{{STRUCTURE_1fyp| PDB=1fyp | SCENE= }}
{{STRUCTURE_1fyp| PDB=1fyp | SCENE= }}
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'''EUKARYOTIC DECODING REGION A-SITE RNA-PAROMOMYCIN COMPLEX'''
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===EUKARYOTIC DECODING REGION A-SITE RNA-PAROMOMYCIN COMPLEX===
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==Overview==
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Aminoglycoside antibiotics, including paromomycin, neomycin and gentamicin, target a region of highly conserved nucleotides in the decoding region aminoacyl-tRNA site (A site) of 16 S rRNA on the 30 S subunit. Change of a single nucleotide, A1408 to G, reduces the affinity of many aminoglycosides for the ribosome; G1408 distinguishes between prokaryotic and eukaryotic ribosomes. The structures of a prokaryotic decoding region A-site oligonucleotide free in solution and bound to the aminoglycosides paromomycin and gentamicin C1a were determined previously. Here, the structure of a eukaryotic decoding region A-site oligonucleotide bound to paromomycin has been determined using NMR spectroscopy and compared to the prokaryotic A-site-paromomycin structure. A conformational change in three adenosine residues of an internal loop, critical for high-affinity antibiotic binding, was observed in the prokaryotic RNA-paromomycin complex in comparison to its free form. This conformational change is not observed in the eukaryotic RNA-paromomycin complex, disrupting the binding pocket for ring I of the antibiotic. The lack of the conformational change supports footprinting and titration calorimetry data that demonstrate approximately 25-50-fold weaker binding of paromomycin to the eukaryotic decoding-site oligonucleotide. Neomycin, which is much less active against Escherichia coli ribosomes with an A1408G mutation, binds non-specifically to the oligonucleotide. These results suggest that eukaryotic ribosomal RNA has a shallow binding pocket for aminoglycosides, which accommodates only certain antibiotics.
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(as it appears on PubMed at http://www.pubmed.gov), where 11237617 is the PubMed ID number.
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{{ABSTRACT_PUBMED_11237617}}
==About this Structure==
==About this Structure==
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FYP OCA].
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Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FYP OCA].
==Reference==
==Reference==
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[[Category: Rna-paromomycin complex]]
[[Category: Rna-paromomycin complex]]
[[Category: Stem-internal loop-stem-tetraloop]]
[[Category: Stem-internal loop-stem-tetraloop]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 16:54:59 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 1 04:08:31 2008''

Revision as of 01:08, 1 July 2008

Image:1fyp.png

Template:STRUCTURE 1fyp

EUKARYOTIC DECODING REGION A-SITE RNA-PAROMOMYCIN COMPLEX

Template:ABSTRACT PUBMED 11237617

About this Structure

Full experimental information is available from OCA.

Reference

Structural origins of aminoglycoside specificity for prokaryotic ribosomes., Lynch SR, Puglisi JD, J Mol Biol. 2001 Mar 9;306(5):1037-58. PMID:11237617

Page seeded by OCA on Tue Jul 1 04:08:31 2008

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