YEAST:XRN1

Species (Taxon ID)	Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast). (559292)
Gene Name(s)	XRN1 (synonyms: DST2, KEM1, RAR5, SEP1, SKI1)
Protein Name(s)	5'-3' exoribonuclease 1 DNA strand transfer protein beta STP-beta KAR(-)-enhancing mutation protein Strand exchange protein 1 p175
External Links
UniProt	P22147
EMBL	M90097 X54717 M58367 M36725 X61181 X84705 Z72695 BK006941
PIR	S13743
RefSeq	NP_011342.1
ProteinModelPortal	P22147
BioGrid	33080
DIP	DIP-656N
IntAct	P22147
MINT	MINT-414332
STRING	4932.YGL173C
MaxQB	P22147
PaxDb	P22147
PeptideAtlas	P22147
EnsemblFungi	[example_ID YGL173C]
GeneID	852702
KEGG	sce:YGL173C
CYGD	YGL173c
SGD	S000003141
eggNOG	COG5049
GeneTree	ENSGT00670000098080
HOGENOM	HOG000160331
KO	K12618
OMA	NIFAYIE
OrthoDB	EOG71RXT2
BioCyc	YEAST:G3O-30661-MONOMER
Reactome	REACT_249345
NextBio	972050
PRO	PR:P22147
Proteomes	UP000002311
Genevestigator	P22147
GO	GO:0005737 GO:0000932 GO:0010494 GO:0005829 GO:0005874 GO:0005634 GO:0048471 GO:0004534 GO:0003682 GO:0003723 GO:0000741 GO:0070651 GO:0000956 GO:0000184 GO:0032968 GO:0060261 GO:0090503 GO:0006364 GO:0007089
InterPro	IPR027073 IPR016494 IPR004859
PANTHER	PTHR12341
Pfam	PF03159
PIRSF	PIRSF006743

Annotations

Qualifier	GO ID	GO term name	Reference	ECO ID	ECO term name	with/from	Aspect	Extension	Notes	Status
enables	GO:0003729	mRNA binding	PMID:23222640^[1]	ECO:0007005	high throughput direct assay evidence used in manual assertion		F		Seeded From UniProt	complete
involved_in	GO:0016242	negative regulation of macroautophagy	PMID:29465287^[2]	ECO:0000315	mutant phenotype evidence used in manual assertion		P	part_of:(GO:0006995)	Seeded From UniProt	complete
part_of	GO:0005737	cytoplasm	PMID:14562095^[3]	ECO:0007005	high throughput direct assay evidence used in manual assertion		C		Seeded From UniProt	complete
part_of	GO:0000932	P-body	PMID:25811606^[4]	ECO:0000314	direct assay evidence used in manual assertion		C	exists_during:(GO:0033554)	Seeded From UniProt	complete
part_of	GO:0090512	eisosome membrane domain/MCC	PMID:25811606^[4]	ECO:0000314	direct assay evidence used in manual assertion		C	exists_during:(GO:0042149)	Seeded From UniProt	complete
involved_in	GO:0061157	mRNA destabilization	PMID:24567736^[5]	ECO:0000315	mutant phenotype evidence used in manual assertion		P		Seeded From UniProt	complete
involved_in	GO:0006364	rRNA processing	PMID:9488433^[6]	ECO:0000315	mutant phenotype evidence used in manual assertion		P		Seeded From UniProt	complete
involved_in	GO:0006364	rRNA processing	PMID:9488433^[6]	ECO:0000316	genetic interaction evidence used in manual assertion	UniProtKB:Q02792	P		Seeded From UniProt	complete
involved_in	GO:0043144	snoRNA processing	PMID:9488433^[6]	ECO:0000316	genetic interaction evidence used in manual assertion	UniProtKB:Q02792	P		Seeded From UniProt	complete
involved_in	GO:0000956	nuclear-transcribed mRNA catabolic process	PMID:24119399^[7]	ECO:0000315	mutant phenotype evidence used in manual assertion		P		Seeded From UniProt	complete
involved_in	GO:0070651	nonfunctional rRNA decay	PMID:19481524^[8]	ECO:0000315	mutant phenotype evidence used in manual assertion		P		Seeded From UniProt	complete
involved_in	GO:0060261	positive regulation of transcription initiation from RNA polymerase II promoter	PMID:23706738^[9]	ECO:0000315	mutant phenotype evidence used in manual assertion		P		Seeded From UniProt	complete
involved_in	GO:0032968	positive regulation of transcription elongation from RNA polymerase II promoter	PMID:23706738^[9]	ECO:0000315	mutant phenotype evidence used in manual assertion		P		Seeded From UniProt	complete
part_of	GO:0010494	cytoplasmic stress granule	PMID:23222640^[1]	ECO:0000314	direct assay evidence used in manual assertion		C	exists_during:(GO:0042149)	Seeded From UniProt	complete
involved_in	GO:0007089	traversing start control point of mitotic cell cycle	PMID:16240118^[10]	ECO:0000315	mutant phenotype evidence used in manual assertion		P		Seeded From UniProt	complete
part_of	GO:0005737	cytoplasm	PMID:23706738^[9]	ECO:0000314	direct assay evidence used in manual assertion		C		Seeded From UniProt	complete
part_of	GO:0005634	nucleus	PMID:23706738^[9]	ECO:0000314	direct assay evidence used in manual assertion		C		Seeded From UniProt	complete
enables	GO:0004534	5'-3' exoribonuclease activity	PMID:1979303^[11]	ECO:0000315	mutant phenotype evidence used in manual assertion		F		Seeded From UniProt	complete
enables	GO:0004534	5'-3' exoribonuclease activity	PMID:3545079^[12]	ECO:0000314	direct assay evidence used in manual assertion		F		Seeded From UniProt	complete
enables	GO:0003682	chromatin binding	PMID:23706738^[9]	ECO:0000314	direct assay evidence used in manual assertion		F		Seeded From UniProt	complete
part_of	GO:0000932	P-body	PMID:12730603^[13]	ECO:0000315	mutant phenotype evidence used in manual assertion		C		Seeded From UniProt	complete
part_of	GO:0000932	P-body	PMID:12730603^[13]	ECO:0000314	direct assay evidence used in manual assertion		C		Seeded From UniProt	complete
involved_in	GO:0000184	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	PMID:10848586^[14]	ECO:0000315	mutant phenotype evidence used in manual assertion		P		Seeded From UniProt	complete
involved_in	GO:0090305	nucleic acid phosphodiester bond hydrolysis	GO_REF:0000108	ECO:0000366	evidence based on logical inference from automatic annotation used in automatic assertion	GO:0004527	P		Seeded From UniProt	complete
involved_in	GO:0090305	nucleic acid phosphodiester bond hydrolysis	GO_REF:0000108	ECO:0000366	evidence based on logical inference from automatic annotation used in automatic assertion	GO:0008409	P		Seeded From UniProt	complete
involved_in	GO:0090305	nucleic acid phosphodiester bond hydrolysis	GO_REF:0000108	ECO:0000366	evidence based on logical inference from automatic annotation used in automatic assertion	GO:0004527	P		Seeded From UniProt	complete
involved_in	GO:0090305	nucleic acid phosphodiester bond hydrolysis	GO_REF:0000108	ECO:0000366	evidence based on logical inference from automatic annotation used in automatic assertion	GO:0004518	P		Seeded From UniProt	complete
involved_in	GO:0090503	RNA phosphodiester bond hydrolysis, exonucleolytic	GO_REF:0000108	ECO:0000364	evidence based on logical inference from manual annotation used in automatic assertion	GO:0004534	P		Seeded From UniProt	complete
involved_in	GO:0090503	RNA phosphodiester bond hydrolysis, exonucleolytic	GO_REF:0000108	ECO:0000364	evidence based on logical inference from manual annotation used in automatic assertion	GO:0004534	P		Seeded From UniProt	complete
involved_in	GO:0090503	RNA phosphodiester bond hydrolysis, exonucleolytic	GO_REF:0000108	ECO:0000364	evidence based on logical inference from manual annotation used in automatic assertion	GO:0004534	P		Seeded From UniProt	complete
involved_in	GO:0000956	nuclear-transcribed mRNA catabolic process	GO_REF:0000002	ECO:0000256	match to sequence model evidence used in automatic assertion	InterPro:IPR016494	P		Seeded From UniProt	complete
enables	GO:0003676	nucleic acid binding	GO_REF:0000002	ECO:0000256	match to sequence model evidence used in automatic assertion	InterPro:IPR004859	F		Seeded From UniProt	complete
enables	GO:0004527	exonuclease activity	GO_REF:0000002	ECO:0000256	match to sequence model evidence used in automatic assertion	InterPro:IPR004859	F		Seeded From UniProt	complete
enables	GO:0008409	5'-3' exonuclease activity	GO_REF:0000002	ECO:0000256	match to sequence model evidence used in automatic assertion	InterPro:IPR016494	F		Seeded From UniProt	complete
part_of	GO:0005829	cytosol	Reactome:R-SCE-429913	ECO:0000304	author statement supported by traceable reference used in manual assertion		C		Seeded From UniProt	complete
enables	GO:0004534	5'-3' exoribonuclease activity	Reactome:R-SCE-429913	ECO:0000304	author statement supported by traceable reference used in manual assertion		F		Seeded From UniProt	complete
involved_in	GO:0000184	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	GO_REF:0000037	ECO:0000322	imported manually asserted information used in automatic assertion	UniProtKB-KW:KW-0866	P		Seeded From UniProt	complete
enables	GO:0004518	nuclease activity	GO_REF:0000037	ECO:0000322	imported manually asserted information used in automatic assertion	UniProtKB-KW:KW-0540	F		Seeded From UniProt	complete
enables	GO:0004527	exonuclease activity	GO_REF:0000037	ECO:0000322	imported manually asserted information used in automatic assertion	UniProtKB-KW:KW-0269	F		Seeded From UniProt	complete
enables	GO:0016787	hydrolase activity	GO_REF:0000037	ECO:0000322	imported manually asserted information used in automatic assertion	UniProtKB-KW:KW-0378	F		Seeded From UniProt	complete
involved_in	GO:0006364	rRNA processing	GO_REF:0000037	ECO:0000322	imported manually asserted information used in automatic assertion	UniProtKB-KW:KW-0698	P		Seeded From UniProt	complete
enables	GO:0003723	RNA binding	GO_REF:0000037	ECO:0000322	imported manually asserted information used in automatic assertion	UniProtKB-KW:KW-0694	F		Seeded From UniProt	complete
part_of	GO:0005874	microtubule	GO_REF:0000037	ECO:0000322	imported manually asserted information used in automatic assertion	UniProtKB-KW:KW-0493	C		Seeded From UniProt	complete
involved_in	GO:0000741	karyogamy	GO_REF:0000037	ECO:0000322	imported manually asserted information used in automatic assertion	UniProtKB-KW:KW-0415	P		Seeded From UniProt	complete
part_of	GO:0005737	cytoplasm	GO_REF:0000037 GO_REF:0000039	ECO:0000322	imported manually asserted information used in automatic assertion	UniProtKB-KW:KW-0963 UniProtKB-SubCell:SL-0086	C		Seeded From UniProt	complete
part_of	GO:0048471	perinuclear region of cytoplasm	GO_REF:0000039	ECO:0000322	imported manually asserted information used in automatic assertion	UniProtKB-SubCell:SL-0198	C		Seeded From UniProt	complete
part_of	GO:0000932	P-body	GO_REF:0000039	ECO:0000322	imported manually asserted information used in automatic assertion	UniProtKB-SubCell:SL-0230	C		Seeded From UniProt	complete
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Notes

References

See Help:References for how to manage references in GONUTS.

↑ ^1.0 ^1.1 Mitchell, SF et al. (2013) Global analysis of yeast mRNPs. Nat. Struct. Mol. Biol. 20 127-33 PubMed GONUTS page
↑ Delorme-Axford, E et al. (2018) The exoribonuclease Xrn1 is a post-transcriptional negative regulator of autophagy. Autophagy 14 898-912 PubMed GONUTS page
↑ Huh, WK et al. (2003) Global analysis of protein localization in budding yeast. Nature 425 686-91 PubMed GONUTS page
↑ ^4.0 ^4.1 Grousl, T et al. (2015) Evolutionarily conserved 5'-3' exoribonuclease Xrn1 accumulates at plasma membrane-associated eisosomes in post-diauxic yeast. PLoS ONE 10 e0122770 PubMed GONUTS page
↑ Medina, DA et al. (2014) Cytoplasmic 5'-3' exonuclease Xrn1p is also a genome-wide transcription factor in yeast. Front Genet 5 1 PubMed GONUTS page
↑ ^6.0 ^6.1 ^6.2 Petfalski, E et al. (1998) Processing of the precursors to small nucleolar RNAs and rRNAs requires common components. Mol. Cell. Biol. 18 1181-9 PubMed GONUTS page
↑ Sun, M et al. (2013) Global analysis of eukaryotic mRNA degradation reveals Xrn1-dependent buffering of transcript levels. Mol. Cell 52 52-62 PubMed GONUTS page
↑ Cole, SE et al. (2009) A convergence of rRNA and mRNA quality control pathways revealed by mechanistic analysis of nonfunctional rRNA decay. Mol. Cell 34 440-50 PubMed GONUTS page
↑ ^9.0 ^9.1 ^9.2 ^9.3 ^9.4 Haimovich, G et al. (2013) Gene expression is circular: factors for mRNA degradation also foster mRNA synthesis. Cell 153 1000-11 PubMed GONUTS page
↑ Pathak, R et al. (2005) A role for KEM1 at the START of the cell cycle in Saccharomyces cerevisiae. Curr. Genet. 48 300-9 PubMed GONUTS page
↑ Larimer, FW & Stevens, A (1990) Disruption of the gene XRN1, coding for a 5'----3' exoribonuclease, restricts yeast cell growth. Gene 95 85-90 PubMed GONUTS page
↑ Stevens, A & Maupin, MK (1987) A 5'----3' exoribonuclease of Saccharomyces cerevisiae: size and novel substrate specificity. Arch. Biochem. Biophys. 252 339-47 PubMed GONUTS page
↑ ^13.0 ^13.1 Sheth, U & Parker, R (2003) Decapping and decay of messenger RNA occur in cytoplasmic processing bodies. Science 300 805-8 PubMed GONUTS page
↑ Maderazo, AB et al. (2000) Upf1p control of nonsense mRNA translation is regulated by Nmd2p and Upf3p. Mol. Cell. Biol. 20 4591-603 PubMed GONUTS page

[PMID:23222640-1] 1.0 ^1.1 Mitchell, SF et al. (2013) Global analysis of yeast mRNPs. Nat. Struct. Mol. Biol. 20 127-33 PubMed GONUTS page

[PMID:29465287-2] Delorme-Axford, E et al. (2018) The exoribonuclease Xrn1 is a post-transcriptional negative regulator of autophagy. Autophagy 14 898-912 PubMed GONUTS page

[PMID:14562095-3] Huh, WK et al. (2003) Global analysis of protein localization in budding yeast. Nature 425 686-91 PubMed GONUTS page

[PMID:25811606-4] 4.0 ^4.1 Grousl, T et al. (2015) Evolutionarily conserved 5'-3' exoribonuclease Xrn1 accumulates at plasma membrane-associated eisosomes in post-diauxic yeast. PLoS ONE 10 e0122770 PubMed GONUTS page

[PMID:24567736-5] Medina, DA et al. (2014) Cytoplasmic 5'-3' exonuclease Xrn1p is also a genome-wide transcription factor in yeast. Front Genet 5 1 PubMed GONUTS page

[PMID:9488433-6] 6.0 ^6.1 ^6.2 Petfalski, E et al. (1998) Processing of the precursors to small nucleolar RNAs and rRNAs requires common components. Mol. Cell. Biol. 18 1181-9 PubMed GONUTS page

[PMID:24119399-7] Sun, M et al. (2013) Global analysis of eukaryotic mRNA degradation reveals Xrn1-dependent buffering of transcript levels. Mol. Cell 52 52-62 PubMed GONUTS page

[PMID:19481524-8] Cole, SE et al. (2009) A convergence of rRNA and mRNA quality control pathways revealed by mechanistic analysis of nonfunctional rRNA decay. Mol. Cell 34 440-50 PubMed GONUTS page

[PMID:23706738-9] 9.0 ^9.1 ^9.2 ^9.3 ^9.4 Haimovich, G et al. (2013) Gene expression is circular: factors for mRNA degradation also foster mRNA synthesis. Cell 153 1000-11 PubMed GONUTS page

[PMID:16240118-10] Pathak, R et al. (2005) A role for KEM1 at the START of the cell cycle in Saccharomyces cerevisiae. Curr. Genet. 48 300-9 PubMed GONUTS page

[PMID:1979303-11] Larimer, FW & Stevens, A (1990) Disruption of the gene XRN1, coding for a 5'----3' exoribonuclease, restricts yeast cell growth. Gene 95 85-90 PubMed GONUTS page

[PMID:3545079-12] Stevens, A & Maupin, MK (1987) A 5'----3' exoribonuclease of Saccharomyces cerevisiae: size and novel substrate specificity. Arch. Biochem. Biophys. 252 339-47 PubMed GONUTS page

[PMID:12730603-13] 13.0 ^13.1 Sheth, U & Parker, R (2003) Decapping and decay of messenger RNA occur in cytoplasmic processing bodies. Science 300 805-8 PubMed GONUTS page

[PMID:10848586-14] Maderazo, AB et al. (2000) Upf1p control of nonsense mRNA translation is regulated by Nmd2p and Upf3p. Mol. Cell. Biol. 20 4591-603 PubMed GONUTS page

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YEAST:XRN1

Contents

Annotations

Notes

References

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