PRA

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Rfam ID: RF02974 (Fibro-purF RNA)


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Timeline Description Structure&recognition References


Timeline

Start

    2017[1] Discovery of Fibro-purF motif by comparative analysis

    The Fibro-purF motif is a candidate riboswitch binding to 5-phospho-D-ribosylamine (PRA) 2020[2]
2023...



Description

 The PRA (5-phosphoribosylamine) riboswitch (Fibro-purF RNA motif) is a conserved RNA structure that was discovered by bioinformatics. All known Fibro-purF RNAs are found upstream of purF genes, which encode amidophosphoribosyltransferase that participates in the biosynthesis of biological purine molecules. Due to the instability of the proposed ligand, direct experiments to confirm this ligand have not yet been conducted (From Wikipedia).


Gene association

All Fibro-purF motif RNA from Fibrobacter succinogenes representatives where determinations can be made are found upstream of a purF gene, which codes for an enzyme, amidophosphoribosyltransferase, that catalyzes the first committed step in the purine biosynthesis pathway[1,2].
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Gene regulation

Putative mechanisms for regulation of gene expression by PRA riboswitches in Fibrobacter succinogenes. The Shine-Dalgarno sequence are shaded in orange. We present the prototypical mechanism, but not all possible mechanisms[2].
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Structure and Ligand recognition

2D representation

Consensus sequence and secondary structure model for the PRA riboswitch[1,2].


Document
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Ligand recognition

Chemical structures of PRA (5-phosphoribosylamine) and C-PRA (carbocyclic 5-phosphoribosylamine). In vitro experiments have corroborated the predicted structure, but no ligand has been established. Refer to the corresponding references for comprehensive details regarding reaction conditions and species information in measuring the dissociation constant displayed below[2].
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References

[1] Detection of 224 candidate structured RNAs by comparative analysis of specific subsets of intergenic regions.
Weinberg, Z. et al.
Nucleic Acids Res. 45, (2017).

[2] A rare bacterial RNA motif is implicated in the regulation of the purF gene whose encoded enzyme synthesizes phosphoribosylamine.
Malkowski, S. N., Atilho, R. M., Greenlee, E. B., Weinberg, C. E. & Breaker, R. R.
RNA 26, (2020).