Warning: Undefined array key "mm" in /www/wwwroot/www.ai-bt.com/si.php on line 10 Deprecated: trim(): Passing null to parameter #1 ($string) of type string is deprecated in /www/wwwroot/www.ai-bt.com/si.php on line 10 Fluorescence probing of T box antiterminator RNA: insights into riboswitch discernment of the tRNA discriminator base.

Literature DB >> 19755116

Fluorescence probing of T box antiterminator RNA: insights into riboswitch discernment of the tRNA discriminator base.

John A Means¹, Crystal M Simson, Shu Zhou, Aaron A Rachford, Jeffrey J Rack, Jennifer V Hines.

Abstract

The T box transcription antitermination riboswitch is one of the main regulatory mechanisms utilized by Gram-positive bacteria to regulate genes that are involved in amino acid metabolism. The details of the antitermination event, including the role that Mg(2+) plays, in this riboswitch have not been completely elucidated. In these studies, details of the antitermination event were investigated utilizing 2-aminopurine to monitor structural changes of a model antiterminator RNA when it was bound to model tRNA. Based on the results of these fluorescence studies, the model tRNA binds the model antiterminator RNA via an induced-fit. This binding is enhanced by the presence of Mg(2+), facilitating the complete base pairing of the model tRNA acceptor end with the complementary bases in the model antiterminator bulge.

Entities: Chemical Species

Mesh：

Substances：

Year: 2009 PMID： 19755116 PMCID： PMC2789444 DOI： 10.1016/j.bbrc.2009.09.037

Source DB: PubMed Journal: Biochem Biophys Res Commun ISSN： 0006-291X Impact factor: 3.575

44 in total

1. Dynamics of mismatched base pairs in DNA.

Authors: C R Guest; R A Hochstrasser; L C Sowers; D P Millar
Journal: Biochemistry Date: 1991-04-02 Impact factor: 3.162

2. Synthesis of small RNAs using T7 RNA polymerase.

Authors: J F Milligan; O C Uhlenbeck
Journal: Methods Enzymol Date: 1989 Impact factor: 1.600

3. Fluorescence studies of nucleotides and polynucleotides. I. Formycin, 2-aminopurine riboside, 2,6-diaminopurine riboside, and their derivatives.

Authors: D C Ward; E Reich; L Stryer
Journal: J Biol Chem Date: 1969-03-10 Impact factor: 5.157

4. Oligoribonucleotide synthesis using T7 RNA polymerase and synthetic DNA templates.

Authors: J F Milligan; D R Groebe; G W Witherell; O C Uhlenbeck
Journal: Nucleic Acids Res Date: 1987-11-11 Impact factor: 16.971

5. Ligand-induced changes in 2-aminopurine fluorescence as a probe for small molecule binding to HIV-1 TAR RNA.

Authors: Thomas D Bradrick; John P Marino
Journal: RNA Date: 2004-07-23 Impact factor: 4.942

6. Synthesis and physicochemical properties of two analogs of poly(dA): poly(2-aminopurine-9-beta-D-deoxyribonucleotide) and poly 2-amino-deoxyadenylic acid.

Authors: K H Scheit; H R Rackwitz
Journal: Nucleic Acids Res Date: 1982-07-10 Impact factor: 16.971

7. tRNA as a positive regulator of transcription antitermination in B. subtilis.

Authors: F J Grundy; T M Henkin
Journal: Cell Date: 1993-08-13 Impact factor: 41.582

8. Long-wavelength fluorescence from 2-aminopurine-nucleobase dimers in DNA.

Authors: Eleanor Y M Bonnist; Anita C Jones
Journal: Chemphyschem Date: 2008-06-02 Impact factor: 3.102

9. Analysis of the Bacillus subtilis tyrS gene: conservation of a regulatory sequence in multiple tRNA synthetase genes.

Authors: T M Henkin; B L Glass; F J Grundy
Journal: J Bacteriol Date: 1992-02 Impact factor: 3.490

10. Conservation of a transcription antitermination mechanism in aminoacyl-tRNA synthetase and amino acid biosynthesis genes in gram-positive bacteria.

Authors: F J Grundy; T M Henkin
Journal: J Mol Biol Date: 1994-01-14 Impact factor: 5.469

7 in total

Fluorescence probing of T box antiterminator RNA: insights into riboswitch discernment of the tRNA discriminator base.

1. Dynamics of mismatched base pairs in DNA.

2. Synthesis of small RNAs using T7 RNA polymerase.

3. Fluorescence studies of nucleotides and polynucleotides. I. Formycin, 2-aminopurine riboside, 2,6-diaminopurine riboside, and their derivatives.

4. Oligoribonucleotide synthesis using T7 RNA polymerase and synthetic DNA templates.

5. Ligand-induced changes in 2-aminopurine fluorescence as a probe for small molecule binding to HIV-1 TAR RNA.

6. Synthesis and physicochemical properties of two analogs of poly(dA): poly(2-aminopurine-9-beta-D-deoxyribonucleotide) and poly 2-amino-deoxyadenylic acid.

7. tRNA as a positive regulator of transcription antitermination in B. subtilis.

8. Long-wavelength fluorescence from 2-aminopurine-nucleobase dimers in DNA.

9. Analysis of the Bacillus subtilis tyrS gene: conservation of a regulatory sequence in multiple tRNA synthetase genes.

10. Conservation of a transcription antitermination mechanism in aminoacyl-tRNA synthetase and amino acid biosynthesis genes in gram-positive bacteria.

1. Anisotropy studies of tRNA-T box antiterminator RNA complex in the presence of 1,4-disubstituted 1,2,3-triazoles.

2. RNA drug discovery: Conformational restriction enhances specific modulation of the T-box riboswitch function.

3. Ligand-induced changes in T box antiterminator RNA stability.

4. Factors that influence T box riboswitch efficacy and tRNA affinity.

5. Identification of Spermidine Binding Site in T-box Riboswitch Antiterminator RNA.

Review 6. Structure and mechanism of the T-box riboswitches.

7. Interfacing medicinal chemistry with structural bioinformatics: implications for T box riboswitch RNA drug discovery.