Nutrient control of ribosomal gene expression (Saccharomyces cerevisiae)

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1ActiveTranscription of5S RNA genestRNA genesRrn3pTFSfp1pTFAmino acidpermeasesMaf1pregulatorD-Glucoseamino acidsRNA Pol IISch9pkinaseGpr1preceptorTpk1pkinaseTpk3pkinaseRNA Pol IYak1pkinaseTorC1complexSch9pkinaseCrf1prepressorFhl1pregulatorIfh1pactivatorcAMPTpk2pkinaseRNA Pol IIICyr1padenylatecyclaseamino acidsMaf1pregulatorMaf1pregulatorActiveSfp1pTFRrn3pTFTorC1complexCrf1prepressorActiveActiveActiveActivecytosolnucleusTranscription ofribosomal protein genesribosome biogenesis genesTranscription ofrDNA genes


Description

Ribosomes are highly conserved large ribonucleoprotein (RNP) particles, consisting in yeast of a large 60S subunit and a small 40S subunit, that perform protein synthesis. Yeast ribosomes contain one copy each of four ribosomal RNAs (5S, 5.8S, 18S, and 25S; produced in two separate transcripts encoded within the rDNA repeat present as hundreds of copies on Chromosome 12) and 79 different ribosomal proteins (r-proteins), which are encoded by 137 different genes scattered about the genome, 59 of which are duplicated. The 60S subunit contains 46 proteins and three RNA molecules: 25S RNA of 3392 nt, hydrogen bonded to the 5.8S RNA of 158 nt and associated with the 5S RNA of 121 nt. The 40S subunit has a single 18S RNA of 1798 nt and 33 proteins. All yeast ribosomal proteins have a mammalian homolog.

PMID: 10690410, PMID: 22884264, PMID: 9421530, PMID: 9396790

In a rapidly growing yeast cell, 60% of total transcription is devoted to ribosomal RNA, and 50% of RNA polymerase II transcription and 90% of mRNA splicing are devoted to the production of mRNAs for r-proteins. Coordinate regulation of the rRNA genes and 137 r-protein genes is affected by nutritional cues and a number of signal transduction pathways that can abruptly induce or silence the ribosomal genes, whose transcripts have naturally short lifetimes, leading to major implications for the expression of other genes as well. The expression of some r-protein genes is influenced by Abf1p, and most are directly induced by binding of Rap1p to their promoters, which excludes nucleosomes and recruits Fhl1p and Ifh1p to drive transcription.

PMID: 10409730, PMID: 12509467, PMID: 10542411, PMID: 2207166, PMID: 16782874

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Bibliography

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  7. Huber A, Bodenmiller B, Uotila A, Stahl M, Wanka S, Gerrits B, Aebersold R, Loewith R; ''Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.''; Genes Dev, 2009 PubMed Europe PMC Scholia
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History

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CompareRevisionActionTimeUserComment
134113view11:08, 21 June 2024EgonwPermeases are proteins
134112view11:07, 21 June 2024EgonwAdded a missing identifier
110881view14:30, 17 June 2020EgonwReplaced an IntAct complex identifier with a Complex Portal identifier (the link out redirects to Complex Portal anyway)
107254view14:35, 17 September 2019MaintBotChEBI identifier normalization
107017view13:47, 17 September 2019MaintBotHMDB identifier normalization
89882view12:58, 6 October 2016MkutmonModified description
78912view20:25, 12 February 2015StaciaSpecify description
78870view18:33, 10 February 2015StaciaSpecify description
78762view13:12, 23 January 2015Bart SmeetsConnected all unconnected lines.
78761view13:08, 23 January 2015Bart SmeetsSpecify description
78760view13:07, 23 January 2015Bart SmeetsPeriodical save, work in progress
78759view12:57, 23 January 2015Bart SmeetsPeriodical save, work in progress
78703view18:04, 15 January 2015StaciaModified description
78702view17:54, 15 January 2015StaciaModified description
78688view05:56, 14 January 2015StaciaSpecify description
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78665view23:50, 12 January 2015StaciaModified description
78664view23:16, 12 January 2015StaciaOntology Term : 'regulatory pathway' added !
78663view23:16, 12 January 2015StaciaOntology Term : 'signaling pathway' added !
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78644view20:43, 12 January 2015StaciaSpecify description
78643view20:43, 12 January 2015StaciaPeriodical save, work in progress

External references

DataNodes

View all...
NameTypeDatabase referenceComment
Amino acid permeases
Crf1p repressorProteinS000002631 (SGD)
Cyr1p

adenylate

cyclase		ProteinS000003542 (SGD)
D-GlucoseMetaboliteHMDB00122 (HMDB)
Fhl1p regulatorProteinS000006308 (SGD)
Gpr1p receptorProteinS000002193 (SGD)
Ifh1p activatorProteinS000004213 (SGD)
Maf1p regulatorProteinS000002412 (SGD)
RNA Pol IComplexEBI-2339149 (IntAct)
RNA Pol IIIComplexS000005642 (SGD)
RNA Pol IIComplexS000002299 (SGD)
Rrn3p TFProteinS000001608 (SGD)
Sch9p kinaseProteinS000001248 (SGD)
Sfp1p TFProteinS000004395 (SGD)
TorC1 complexComplexEBI-2435049 (IntAct)
Tpk1p kinaseProteinS000003700 (SGD)
Tpk2p kinaseProteinS000006124 (SGD)
Tpk3p kinaseProteinS000001649 (SGD)
Yak1p kinaseProteinS000003677 (SGD)
amino acidsMetabolite33709 (ChEBI)
cAMPMetaboliteHMDB00058 (HMDB)

Annotated Interactions

No annotated interactions

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