6hc5 | pdb_00006hc5

The structure of the G. violaceus guanidine II riboswitch P2 stem-loop with audouine

spinqualitylabelsall models 6hc5, resolution 1.41Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 6hc5 is a 1 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Ligands: FXT, NA, SO4 NonStd Res: CBV Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Publication Abstract from PubMed We have designed structure-based ligands for the guanidine-II riboswitch that bind with enhanced affinity, exploiting the twin binding sites created by loop-loop interaction. We synthesized diguanidine species, comprising two guanidino groups covalently connected by Cn linkers where n = 4 or 5. Calorimetric and fluorescent analysis shows that these ligands bind with a ten-fold higher affinity to the riboswitch compared to guanidine. We determined X-ray crystal structures of the riboswitch bound to the new ligands, showing that the guanidino groups are bound to both nucleobases and backbone within the binding pockets, analogously to guanidine binding. The connecting chain passes through side openings in the binding pocket and traverses the minor groove of the RNA. The combination of the riboswitch loop-loop interaction and our novel ligands have potential applications in chemical biology. Structure-guided design of a high affinity ligand for a riboswitch.,Huang L, Wang J, Wilson TJ, Lilley DMJ RNA. 2019 Jan 4. pii: rna.069567.118. doi: 10.1261/rna.069567.118. PMID:30609994 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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