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NACON VIII: 8th International Meeting on Recognition Studies in Nucleic Acid

Interactions of the c-di-GMP riboswitch with its second messenger ligand

Kathryn D. Smith, Scott A. Strobel
Biochemical Society Transactions Mar 22, 2011, 39 (2) 647-651; DOI: 10.1042/BST0390647
Kathryn D. Smith
Department of Chemistry, Yale University, 225 Prospect Street, New Haven, CT 06520, U.S.A.
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Scott A. Strobel
Department of Chemistry, Yale University, 225 Prospect Street, New Haven, CT 06520, U.S.A.Department of Molecular Biophysics and Biochemistry, Yale University, 260 Whitney Avenue, New Haven, CT 06520, U.S.A.
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  • For correspondence: scott.strobel@yale.edu
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Abstract

The c-di-GMP [bis-(3′–5′)-cyclic dimeric guanosine monophosphate] riboswitch is a macromolecular target in the c-di-GMP second messenger signalling pathway. It regulates many genes related to c-di-GMP metabolism as well as genes involved in bacterial motility, virulence and biofilm formation. The riboswitch makes asymmetric contacts to the bases and phosphate backbone of this symmetric dinucleotide. The phylogenetics suggested and mutagenesis has confirmed that this is a flexible motif where variants can make alternative interactions with each of the guanine bases of c-di-GMP. A mutant riboswitch has been designed that can bind a related molecule, c-di-AMP, confirming the most important contacts made to the ligand. The binding kinetics reveal that this is a kinetically controlled riboswitch and mutations to the riboswitch lead to increases in the off-rate. This riboswitch is therefore flexible in sequence as well as kinetic properties.

  • bis-(3′–5′)-cyclic dimeric GMP (c-di-GMP)
  • guanine
  • ligand binding
  • riboswitch
  • signalling

Footnotes

  • NACON VIII: 8th International Meeting on Recognition Studies in Nucleic Acids: An Independent Meeting held at The Edge, University of Sheffield, Sheffield, U.K., 12–16 September 2010. Organized by Mike Blackburn, Mark Dickman, Jane Grasby, David Hornby, Chris Hunter, John Rafferty, Jim Thomas, David Williams and Nick Williams (Sheffield, U.K.).

Abbreviations: c-di-GMP, bis-(3′–5′)-cyclic dimeric GMP; TL/TLR, tetraloop/tetraloop receptor

  • © The Authors Journal compilation © 2011 Biochemical Society
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April 2011

Volume: 39 Issue: 2

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Interactions of the c-di-GMP riboswitch with its second messenger ligand
Kathryn D. Smith, Scott A. Strobel
Biochemical Society Transactions Apr 2011, 39 (2) 647-651; DOI: 10.1042/BST0390647
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Interactions of the c-di-GMP riboswitch with its second messenger ligand
Kathryn D. Smith, Scott A. Strobel
Biochemical Society Transactions Apr 2011, 39 (2) 647-651; DOI: 10.1042/BST0390647

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  • Article
    • Abstract
    • c-di-GMP signalling and the c-di-GMP riboswitch
    • Recognition of c-di-GMP by GEMM
    • RNA requirements for second messenger binding
    • Recognition of an alternative ligand
    • Kinetic control and genetic regulation
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Keywords

bis-(3′–5′)-cyclic dimeric GMP (c-di-GMP)
guanine
ligand binding
riboswitch
signalling

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