2N0J

Solution NMR Structure of the 27 nucleotide engineered neomycin sensing riboswitch RNA-ribostamycin complex

Summary for 2N0J

• Entry DOI: 10.2210/pdb2n0j/pdb
• NMR Information: BMRB: 25526
• Descriptor: RNA_(27-MER), RIBOSTAMYCIN (2 entities in total)
• Functional Keywords: riboswitches, rna-ligand interaction, aminoglycosides, rna recognition, rna structure, rna
• Biological source: synthetic construct
• Total number of polymer chains: 1
• Total formula weight: 9011.50

Authors

Duchardt-Ferner, E.,Gottstein-Schmidtke, S.R.,Weigand, J.E.,Ohlenschlaeger, O.E.,Wurm, J.,Hammann, C.,Suess, B.,Woehnert, J. (deposition date: 2015-03-09, release date: 2016-02-03, Last modification date: 2024-05-01)

Primary citation

Duchardt-Ferner, E.,Gottstein-Schmidtke, S.R.,Weigand, J.E.,Ohlenschlager, O.,Wurm, J.P.,Hammann, C.,Suess, B.,Wohnert, J.
What a Difference an OH Makes: Conformational Dynamics as the Basis for the Ligand Specificity of the Neomycin-Sensing Riboswitch.
Angew.Chem.Int.Ed.Engl., 55:1527-1530, 2016

PubMed Abstract: To ensure appropriate metabolic regulation, riboswitches must discriminate efficiently between their target ligands and chemically similar molecules that are also present in the cell. A remarkable example of efficient ligand discrimination is a synthetic neomycin-sensing riboswitch. Paromomycin, which differs from neomycin only by the substitution of a single amino group with a hydroxy group, also binds but does not flip the riboswitch. Interestingly, the solution structures of the two riboswitch-ligand complexes are virtually identical. In this work, we demonstrate that the local loss of key intermolecular interactions at the substitution site is translated through a defined network of intramolecular interactions into global changes in RNA conformational dynamics. The remarkable specificity of this riboswitch is thus based on structural dynamics rather than static structural differences. In this respect, the neomycin riboswitch is a model for many of its natural counterparts.

PubMed: 26661511
DOI: 10.1002/anie.201507365

Experimental method

SOLUTION NMR