FuFi-1 RNA motif
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| FuFi-1 | |
|---|---|
 Consensus secondary structure and sequence conservation of FuFi-1 RNA | |
| Identifiers | |
| Symbol | FuFi-1 |
| Rfam | RF02986 |
| Other data | |
| RNA type | Gene; sRNA |
| SO | SO:0001263 |
| PDB structures | PDBe |
The FuFi-1 RNA motif is a conserved RNA structure that was discovered by bioinformatics.[1] Such RNA "motifs" are often the first step to elucidating the biological function of a novel RNA.[2] FuFi-1 motif RNAs are found in Bacillota AND Fusobacteriota.
FuFi-1 RNAs are sometimes located in the vicinity of genes that encode XRE-like proteins, an example of a helix-turn-helix structure. However, XRE-like proteins are very common in bacteria, and therefore it is unclear that this association represents an important biological connection. Also, while the XRE-like genes are often located nearby to the FuFi-1 RNAs, the RNAs are not positioned so that they could be consistently located in the 5' untranslated region of the genes. Therefore, FuFi-1 RNAs likely function in trans as small RNAs. Predicted Rho-independent transcription terminator hairpins occur on the 3' part of the FuFi-1 RNA motif, suggesting that they terminate transcripts containing the RNA motif. These transcription terminators were predicting using the RNie program.[3]
References
[edit]- ^ Weinberg Z, Lünse CE, Corbino KA, Ames TD, Nelson JW, Roth A, Perkins KR, Sherlock ME, Breaker RR (October 2017). "Detection of 224 candidate structured RNAs by comparative analysis of specific subsets of intergenic regions". Nucleic Acids Res. 45 (18): 10811–10823. doi:10.1093/nar/gkx699. PMC 5737381. PMID 28977401.
- ^ Greenlee EB, Stav S, Atilho RM, Brewer KI, Harris KA, Malkowski SN, Mirihana Arachchilage G, Perkins KR, Sherlock ME, Breaker RR (March 2018). "Challenges of ligand identification for the second wave of orphan riboswitch candidates". RNA Biol. 15 (3): 377–390. doi:10.1080/15476286.2017.1403002. PMC 5927730. PMID 29135333.
- ^ Gardner PP, Barquist L, Bateman A, Nawrocki EP, Weinberg Z (August 2011). "RNIE: genome-wide prediction of bacterial intrinsic terminators". Nucleic Acids Res. 39 (14): 5845–5852. doi:10.1093/nar/gkr168. PMC 3152330. PMID 21478170.