1ntb: Difference between revisions

Revision as of 15:09, 21 February 2008

2.9 A crystal structure of Streptomycin RNA-aptamer complex

OverviewOverview

We describe a 2.9 A X-ray structure of a complex between the aminocyclitol antibiotic streptomycin and an in vitro selected RNA aptamer, solved using the anomalous diffraction properties of Ba cations. The RNA aptamer, which contains two asymmetric internal loops, adopts a distinct cation-stabilized fold involving a series of S-shaped backbone turns anchored by canonical and noncanonical pairs and triples. The streptomycin streptose ring is encapsulated by stacked arrays of bases from both loops at the elbow of the L-shaped RNA architecture. Specificity is defined by direct hydrogen bonds between all streptose functional groups and base edges that line the inner walls of the cylindrical binding pocket. By contrast, the majority of intermolecular interactions involve contacts to backbone phosphates in the published structure of streptomycin bound to the 16S rRNA.

About this StructureAbout this Structure

1NTB is a Protein complex structure of sequences from [1] with , and as ligands. Full crystallographic information is available from OCA.

ReferenceReference

Encapsulating streptomycin within a small 40-mer RNA., Tereshko V, Skripkin E, Patel DJ, Chem Biol. 2003 Feb;10(2):175-87. PMID:12618190

Page seeded by OCA on Thu Feb 21 14:09:45 2008

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OCA

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-[[Image:1ntb.gif|left|200px]]<br /><applet load="1ntb" size="450" color="white" frame="true" align="right" spinBox="true"
+[[Image:1ntb.gif|left|200px]]<br /><applet load="1ntb" size="350" color="white" frame="true" align="right" spinBox="true"
 caption="1ntb, resolution 2.90&Aring;" />
 '''2.9 A crystal structure of Streptomycin RNA-aptamer complex'''<br />
 ==Overview==
-We describe a 2.9 A X-ray structure of a complex between the aminocyclitol, antibiotic streptomycin and an in vitro selected RNA aptamer, solved using, the anomalous diffraction properties of Ba cations. The RNA aptamer, which, contains two asymmetric internal loops, adopts a distinct, cation-stabilized fold involving a series of S-shaped backbone turns, anchored by canonical and noncanonical pairs and triples. The streptomycin, streptose ring is encapsulated by stacked arrays of bases from both loops, at the elbow of the L-shaped RNA architecture. Specificity is defined by, direct hydrogen bonds between all streptose functional groups and base, edges that line the inner walls of the cylindrical binding pocket. By, contrast, the majority of intermolecular interactions involve contacts to, backbone phosphates in the published structure of streptomycin bound to, the 16S rRNA.
+We describe a 2.9 A X-ray structure of a complex between the aminocyclitol antibiotic streptomycin and an in vitro selected RNA aptamer, solved using the anomalous diffraction properties of Ba cations. The RNA aptamer, which contains two asymmetric internal loops, adopts a distinct cation-stabilized fold involving a series of S-shaped backbone turns anchored by canonical and noncanonical pairs and triples. The streptomycin streptose ring is encapsulated by stacked arrays of bases from both loops at the elbow of the L-shaped RNA architecture. Specificity is defined by direct hydrogen bonds between all streptose functional groups and base edges that line the inner walls of the cylindrical binding pocket. By contrast, the majority of intermolecular interactions involve contacts to backbone phosphates in the published structure of streptomycin bound to the 16S rRNA.
 ==About this Structure==
-NTB is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with MG, NA and SRY as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1NTB OCA].
+NTB is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=MG:'>MG</scene>, <scene name='pdbligand=NA:'>NA</scene> and <scene name='pdbligand=SRY:'>SRY</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NTB OCA].
 ==Reference==
 Encapsulating streptomycin within a small 40-mer RNA., Tereshko V, Skripkin E, Patel DJ, Chem Biol. 2003 Feb;10(2):175-87. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12618190 12618190]
 [[Category: Protein complex]]
-[[Category: Patel, D.J.]]
+[[Category: Patel, D J.]]
 [[Category: Skripkin, E.]]
 [[Category: Tereshko, V.]]
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 [[Category: streptomycin rna-aptamer]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sat Nov 24 23:46:33 2007''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:09:45 2008''