Difference between revisions of "RNA switch"
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* '''Protein-dependent RNA switches''' | * '''Protein-dependent RNA switches''' | ||
** [http://rfam.sanger.ac.uk/family?acc=RF00558 L20 leader]: in front of the ''[[infC]]-[[rpmI]]-[[rplT]]-[[ysdA]]'' operon: controlled by [[RplT]] binding | ** [http://rfam.sanger.ac.uk/family?acc=RF00558 L20 leader]: in front of the ''[[infC]]-[[rpmI]]-[[rplT]]-[[ysdA]]'' operon: controlled by [[RplT]] binding | ||
| + | ** S4 leader: in front of the ''[[rpsD]]'' gene: controlled by ''RpsD'' binding | ||
| + | ** S15 leader: in front of the ''[[rpsO]]'' gene: controlled by ''RpsO'' binding | ||
** ''[[ptsG]]-[[ptsH]]-[[ptsI]]'': controlled by [[GlcT]] | ** ''[[ptsG]]-[[ptsH]]-[[ptsI]]'': controlled by [[GlcT]] | ||
** ''[[sacX]]-[[sacY]]'', ''[[sacB]]'': controlled by [[SacY]] | ** ''[[sacX]]-[[sacY]]'', ''[[sacB]]'': controlled by [[SacY]] | ||
| Line 20: | Line 22: | ||
* '''Metabolite-dependent RNA switches: Riboswitches''' | * '''Metabolite-dependent RNA switches: Riboswitches''' | ||
**[[A-box]] | **[[A-box]] | ||
| + | **[[B12 riboswitch]] | ||
**[[FMN-box]] | **[[FMN-box]] | ||
**[[G-box]] | **[[G-box]] | ||
| Line 30: | Line 33: | ||
**[[Thi-box]] | **[[Thi-box]] | ||
**[[YdaO riboswitch]] | **[[YdaO riboswitch]] | ||
| + | **[[YkkC riboswitch]]: ''[[ykkC]]-[[ykkD]], [[yxkD]]'' | ||
| + | **[[yybP-ykoY motif]]: ''[[yybP]]'', ''[[ykoY]]'' | ||
* '''Additional RNA switches''' | * '''Additional RNA switches''' | ||
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The function of the following potential RNA structures is unknown. They were suggested to control the mentioned genes. | The function of the following potential RNA structures is unknown. They were suggested to control the mentioned genes. | ||
** ''[[yjdF]]'' switch: ''[[yjdF]]'' {{PubMed|20230605}} | ** ''[[yjdF]]'' switch: ''[[yjdF]]'' {{PubMed|20230605}} | ||
| − | |||
| − | |||
** [http://rfam.sanger.ac.uk/family?acc=RF00516 ylbH switch]: ''[[ylbH]]'' | ** [http://rfam.sanger.ac.uk/family?acc=RF00516 ylbH switch]: ''[[ylbH]]'' | ||
** [http://rfam.sanger.ac.uk/family?acc=RF00557 L10 leader]: ''[[rplJ]]'' | ** [http://rfam.sanger.ac.uk/family?acc=RF00557 L10 leader]: ''[[rplJ]]'' | ||
| Line 74: | Line 77: | ||
** ''[[pelC]]'' | ** ''[[pelC]]'' | ||
** ''[[yxbB]]'' | ** ''[[yxbB]]'' | ||
| − | |||
==[http://www.pdb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb130_1.html An overview on the structural aspects]== | ==[http://www.pdb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb130_1.html An overview on the structural aspects]== | ||
| + | ==Important Original Publications== | ||
| + | <pubmed> 24971878 27120414 28541183 37409574 </pubmed> | ||
==Important Reviews== | ==Important Reviews== | ||
| − | <pubmed>15063848 , 19385727 19250859 ,19141470 , 17092822, 17764952 ,17381303, 16226486 , 16153177 , 15750802, 14523920 18430893 12029388 19859665 19298181 20230605 20384681 12787499 14698618 21317561 21477128 21334966 20525796 21317561 </pubmed> | + | <pubmed>15063848 , 19385727 19250859 ,19141470 , 17092822, 17764952 ,17381303, 16226486 , 16153177 , 15750802, 14523920 18430893 12029388 19859665 19298181 20230605 20384681 12787499 14698618 21317561 21477128 21334966 20525796 21317561 23332744 27607554, 38385150 |
| + | </pubmed> | ||
Latest revision as of 10:16, 23 February 2024
RNA switches are regulatory systems that rely on alternative mRNA structures.
RNA switches may be triggered by proteins, tRNAs (T-box), or metabolites (riboswitches)
Contents
List of the Bacillus subtilis RNA switches
- Protein-dependent RNA switches
- L20 leader: in front of the infC-rpmI-rplT-ysdA operon: controlled by RplT binding
- S4 leader: in front of the rpsD gene: controlled by RpsD binding
- S15 leader: in front of the rpsO gene: controlled by RpsO binding
- ptsG-ptsH-ptsI: controlled by GlcT
- sacX-sacY, sacB: controlled by SacY
- sacP-sacA: controlled by SacT
- bglS, bglP-bglH-yxiE: controlled by LicT
- glpD, glpF-glpK, glpT-glpQ: controlled by GlpP
- pabA, trpE-trpD-trpC-trpF-trpB-trpA, trpP, ycbK: controlled by TRAP
- hutH-hutU-hutI-hutG-hutM: controlled by HutP
- pyrR-pyrP-pyrB-pyrC-pyrAA-pyrAB-pyrK-pyrD-pyrF-pyrE: controlled by PyrR
- tRNA-dependent RNA switches: T-box
- Metabolite-dependent RNA switches: Riboswitches
- Additional RNA switches
- pyrG RNA switch: low levels of intracellular CTP induce reiterative addition of G residues at position +4 in the 5' end of the pyrG mRNA, which is encoded as pppGGGC. . . . The poly(G) sequences formed under these conditions act to prevent attenuation by base pairing with the C- and U-rich 5' strand of a downstream terminator stem-loop located in the pyrG leader. PubMed
- EAR (eps-associated RNA switch): located between epsB and epsC, mediates processive antitermination and allows expression of the long eps operon PubMed
The function of the following potential RNA structures is unknown. They were suggested to control the mentioned genes.
- yjdF switch: yjdF PubMed
- ylbH switch: ylbH
- L10 leader: rplJ
- L13 leader: rplM
- L19 leader: rplS
- L21_leader:in front of the rplU-ysxB-rpmA operon
- RNA switch candidates PubMed, upstream of:
An overview on the structural aspects
Important Original Publications
Important Reviews
