Fluoride ion encapsulation by Mg(2+) ions and phosphates in a fluoride riboswitch Journal Article
| Authors: | Ren, A.; Rajashankar, K. R.; Patel, D. J. |
| Article Title: | Fluoride ion encapsulation by Mg(2+) ions and phosphates in a fluoride riboswitch |
| Abstract: | Significant advances in our understanding of RNA architecture, folding and recognition have emerged from structure-function studies on riboswitches, non-coding RNAs whose sensing domains bind small ligands and whose adjacent expression platforms contain RNA elements involved in the control of gene regulation. We now report on the ligand-bound structure of the Thermotoga petrophila fluoride riboswitch, which adopts a higher-order RNA architecture stabilized by pseudoknot and long-range reversed Watson-Crick and Hoogsteen A•U pair formation. The bound fluoride ion is encapsulated within the junctional architecture, anchored in place through direct coordination to three Mg 2+ ions, which in turn are octahedrally coordinated to water molecules and five inwardly pointing backbone phosphates. Our structure of the fluoride riboswitch in the bound state shows how RNA can form a binding pocket selective for fluoride, while discriminating against larger halide ions. The T. petrophila fluoride riboswitch probably functions in gene regulation through a transcription termination mechanism. © 2012 Macmillan Publishers Limited. |
| Keywords: | nonhuman; binding affinity; genetic analysis; gene expression; structure-activity relationship; molecular mechanics; substrate specificity; ligand; molecular analysis; ligands; base sequence; binding site; gene control; models, molecular; binding sites; water; nucleic acid conformation; rna structure; phosphate; phosphates; gene expression regulation, bacterial; magnesium ion; riboswitch; cations, divalent; magnesium; transcription termination; ion; nanoencapsulation; fluoride; fluoride ion; thermotoga; fluorides; gram-negative anaerobic straight, curved, and helical rods; nucleotide motifs |
| Journal Title: | Nature |
| Volume: | 486 |
| Issue: | 7401 |
| ISSN: | 0028-0836 |
| Publisher: | Nature Publishing Group |
| Date Published: | 2012-05-13 |
| Start Page: | 85 |
| End Page: | 89 |
| Language: | English |
| DOI: | 10.1038/nature11152 |
| PROVIDER: | scopus |
| PUBMED: | 22678284 |
| PMCID: | PMC3744881 |
| DOI/URL: | |
| Notes: | --- - "Export Date: 2 July 2012" - "CODEN: NATUA" - "Source: Scopus" |
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