1am0: Difference between revisions

Revision as of 12:45, 21 February 2008

AMP RNA APTAMER COMPLEX, NMR, 8 STRUCTURES

OverviewOverview

The catalytic properties of RNA and its well known role in gene expression and regulation are the consequence of its unique solution structures. Identification of the structural determinants of ligand recognition by RNA molecules is of fundamental importance for understanding the biological functions of RNA, as well as for the rational design of RNA Sequences with specific catalytic activities. Towards this latter end, Szostak et al. used in vitro selection techniques to isolate RNA sequences ('aptamers') containing a high-affinity binding site for ATP, the universal currency of cellular energy, and then used this motif to engineer ribozymes with polynucleotide kinase activity. Here we present the solution structure, as determined by multidimensional NMR spectroscopy and molecular dynamics calculations, of both uniformly and specifically 13C-, 15N-labelled 40-mer RNA containing the ATP-binding motif complexed with AMP. The aptamer adopts an L-shaped structure with two nearly orthogonal stems, each capped proximally by a G x G mismatch pair, binding the AMP ligand at their junction in a GNRA-like motif.

About this StructureAbout this Structure

1AM0 is a Protein complex structure of sequences from [1] with as ligand. This structure supersedes the now removed PDB entry 1ARA. Full crystallographic information is available from OCA.

ReferenceReference

Structural basis of RNA folding and recognition in an AMP-RNA aptamer complex., Jiang F, Kumar RA, Jones RA, Patel DJ, Nature. 1996 Jul 11;382(6587):183-6. PMID:8700212

Page seeded by OCA on Thu Feb 21 11:45:59 2008

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OCA

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-[[Image:1am0.jpg|left|200px]]<br /><applet load="1am0" size="450" color="white" frame="true" align="right" spinBox="true"
+[[Image:1am0.jpg|left|200px]]<br /><applet load="1am0" size="350" color="white" frame="true" align="right" spinBox="true"
 caption="1am0" />
 '''AMP RNA APTAMER COMPLEX, NMR, 8 STRUCTURES'''<br />
 ==Overview==
-The catalytic properties of RNA and its well known role in gene expression, and regulation are the consequence of its unique solution structures., Identification of the structural determinants of ligand recognition by RNA, molecules is of fundamental importance for understanding the biological, functions of RNA, as well as for the rational design of RNA Sequences with, specific catalytic activities. Towards this latter end, Szostak et al., used in vitro selection techniques to isolate RNA sequences ('aptamers'), containing a high-affinity binding site for ATP, the universal currency of, cellular energy, and then used this motif to engineer ribozymes with, polynucleotide kinase activity. Here we present the solution structure, as, determined by multidimensional NMR spectroscopy and molecular dynamics, calculations, of both uniformly and specifically 13C-, 15N-labelled 40-mer, RNA containing the ATP-binding motif complexed with AMP. The aptamer, adopts an L-shaped structure with two nearly orthogonal stems, each capped, proximally by a G x G mismatch pair, binding the AMP ligand at their, junction in a GNRA-like motif.
+The catalytic properties of RNA and its well known role in gene expression and regulation are the consequence of its unique solution structures. Identification of the structural determinants of ligand recognition by RNA molecules is of fundamental importance for understanding the biological functions of RNA, as well as for the rational design of RNA Sequences with specific catalytic activities. Towards this latter end, Szostak et al. used in vitro selection techniques to isolate RNA sequences ('aptamers') containing a high-affinity binding site for ATP, the universal currency of cellular energy, and then used this motif to engineer ribozymes with polynucleotide kinase activity. Here we present the solution structure, as determined by multidimensional NMR spectroscopy and molecular dynamics calculations, of both uniformly and specifically 13C-, 15N-labelled 40-mer RNA containing the ATP-binding motif complexed with AMP. The aptamer adopts an L-shaped structure with two nearly orthogonal stems, each capped proximally by a G x G mismatch pair, binding the AMP ligand at their junction in a GNRA-like motif.
 ==About this Structure==
-AM0 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with AMP as [http://en.wikipedia.org/wiki/ligand ligand]. This structure superseeds the now removed PDB entry 1ARA. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1AM0 OCA].
+AM0 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=AMP:'>AMP</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. This structure supersedes the now removed PDB entry 1ARA. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1AM0 OCA].
 ==Reference==
@@ Line 13: / Line 13: @@
 [[Category: Protein complex]]
 [[Category: Jiang, F.]]
-[[Category: Jones, R.A.]]
+[[Category: Jones, R A.]]
-[[Category: Kumar, R.A.]]
+[[Category: Kumar, R A.]]
-[[Category: Patel, D.J.]]
+[[Category: Patel, D J.]]
 [[Category: AMP]]
 [[Category: complex (ribonucleic acid/amp)]]
@@ Line 24: / Line 24: @@
 [[Category: rna aptamer]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sat Nov 24 23:03:29 2007''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 11:45:59 2008''