2jwv
From Proteopedia
| Line 4: | Line 4: | ||
|PDB= 2jwv |SIZE=350|CAPTION= <scene name='initialview01'>2jwv</scene> | |PDB= 2jwv |SIZE=350|CAPTION= <scene name='initialview01'>2jwv</scene> | ||
|SITE= | |SITE= | ||
| - | |LIGAND= | + | |LIGAND= <scene name='pdbligand=A:ADENOSINE-5'-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=C:CYTIDINE-5'-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=G:GUANOSINE-5'-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=U:URIDINE-5'-MONOPHOSPHATE'>U</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY=[[1ooa|1OOA]] | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2jwv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jwv OCA], [http://www.ebi.ac.uk/pdbsum/2jwv PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2jwv RCSB]</span> | ||
}} | }} | ||
| Line 28: | Line 31: | ||
[[Category: stem loop]] | [[Category: stem loop]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 04:02:18 2008'' |
Revision as of 01:02, 31 March 2008
| |||||||
| Ligands: | , , , | ||||||
| Related: | 1OOA
| ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Structure of a high affinity anti-NFkB RNA aptamer
Overview
The binding of RNA molecules to proteins or other ligands can require extensive RNA folding to create an induced fit. Understanding the generality of this principle involves comparing structures of RNA before and after complex formation. Here we report the NMR solution structure of a 29-nt RNA aptamer whose crystal structure had previously been determined in complex with its transcription factor target, the p50(2) form of NF-kappaB. The RNA aptamer internal loop structure has pre-organized features that are also found in the complex, including non-canonical base pairing and cross-strand base stacking. Remarkably, the free RNA aptamer structure possesses a major groove that more closely resembles B-form DNA than RNA. Upon protein binding, changes in RNA structure include the kinking of the internal loop and distortion of the terminal tetraloop. Thus, complex formation involves both pre-formed and induced fit binding interactions. The high affinity of the NF-kappaB transcription factor for this RNA aptamer may largely be due to the structural pre-organization of the RNA that results in its ability to mimic DNA.
About this Structure
2JWV is a Single protein structure of sequence from [1]. Full crystallographic information is available from OCA.
Reference
DNA mimicry by a high-affinity anti-NF-{kappa}B RNA aptamer., Reiter NJ, Maher LJ 3rd, Butcher SE, Nucleic Acids Res. 2007 Dec 26;. PMID:18160411
Page seeded by OCA on Mon Mar 31 04:02:18 2008
