General negative regulator of transcription subunit 3 - Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

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P06102 (NOT3_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified April 3, 2013. Version 128. History...

Clusters with 100%, 90%, 50% identity |

Documents (3) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
General negative regulator of transcription subunit 3

Gene names

Name:	NOT3
Ordered Locus Names:	YIL038C

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces ›

Protein attributes

Sequence length	836 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Acts as component of the CCR4-NOT core complex, which in the nucleus seems to be a general transcription factor, and in the cytoplasm the major mRNA deadenylase involved in mRNA turnover. The NOT protein subcomplex negatively regulates the basal and activated transcription of many genes. Preferentially affects TC-type TATA element-dependent transcription. Could directly or indirectly inhibit component(s) of the general transcription machinery. Ref.6
Subunit structure	Forms a NOT protein complex that comprises NOT1, NOT2, NOT3, NOT4 and NOT5. Subunit of the 1.0 MDa CCR4-NOT core complex that contains CCR4, CAF1, NOT1, NOT2, NOT3, NOT4, NOT5, CAF40 and CAF130. The core complex probably is part of a less characterized 1.9 MDa CCR4-NOT complex. Ref.6 Ref.7
Subcellular location	Cytoplasm Probable. Nucleus.
Miscellaneous	Present with 2490 molecules/cell in log phase SD medium.
Sequence similarities	Belongs to the CNOT2/3/5 family.
Caution	Was originally (Ref.1) thought to be CDC39 (which is in fact NOT1).

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Cytoplasm Nucleus
Domain	Coiled coil
Molecular function	Activator Repressor
PTM	Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	nuclear-transcribed mRNA poly(A) tail shortening Inferred from direct assay PubMed 11889048. Source: SGD positive regulation of transcription elongation from RNA polymerase II promoter Inferred from direct assay PubMed 21406554. Source: SGD protein ubiquitination Inferred from mutant phenotype PubMed 16926149. Source: SGD transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	CCR4-NOT core complex Inferred from physical interaction PubMed 10490603. Source: SGD cytoplasm Inferred from direct assay PubMed 11889048. Source: SGD nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
CAF40	P53829	3	EBI-12165,EBI-28306
CDC39	P25655	3	EBI-12165,EBI-12139

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 836

836

General negative regulator of transcription subunit 3

PRO_0000198337

Regions

Coiled coil

36 – 68

Potential

Coiled coil

119 – 195

Potential

Coiled coil

255 – 292

Potential

Coiled coil

803 – 831

Potential

Amino acid modifications

Modified residue

257

Phosphoserine Ref.14

Modified residue

322

Phosphoserine Ref.12 Ref.13

Modified residue

324

Phosphoserine Ref.13

Modified residue

326

Phosphoserine Ref.12 Ref.13

Modified residue

344

Phosphoserine Ref.12 Ref.13 Ref.14

Modified residue

347

Phosphoserine Ref.13 Ref.14

Modified residue

348

Phosphoserine Ref.13 Ref.14

Modified residue

373

Phosphothreonine Ref.12

Modified residue

442

Phosphoserine Ref.8 Ref.14

Modified residue

446

Phosphoserine Ref.8

Modified residue

450

Phosphoserine Ref.8 Ref.11 Ref.14

Modified residue

454

Phosphothreonine Ref.8 Ref.10 Ref.11 Ref.14

Modified residue

460

Phosphoserine Ref.14

Modified residue

565

Phosphoserine Ref.14

Modified residue

657

Phosphoserine Ref.11 Ref.14

Experimental info

Sequence conflict

106

I → N in CAA86913. Ref.1

Sequence conflict

593

K → R in AAT92916. Ref.4

Sequence conflict

725

Y → C in CAA86913. Ref.1

Sequence conflict

827 – 836

KQLKQGKISV → ETIETGKN in CAA86913. Ref.1

Sequences

Sequence

Length

Mass (Da)

Tools

P06102 [UniParc].

Last modified February 1, 1995. Version 2.
Checksum: 69B76694FCC6846F
Show »

FASTA

836

94,403

        10         20         30         40         50         60 
MAHRKLQQEV DRVFKKINEG LEIFNSYYER HESCTNNPSQ KDKLESDLKR EVKKLQRLRE 

        70         80         90        100        110        120 
QIKSWQSSPD IKDKDSLLDY RRSVEIAMEK YKAVEKASKE KAYSNISLKK SETLDPQERE 

       130        140        150        160        170        180 
RRDISEYLSQ MIDELERQYD SLQVEIDKLL LLNKKKKTSS TTNDEKKEQY KRFQARYRWH 

       190        200        210        220        230        240 
QQQMELALRL LANEELDPQD VKNVQDDINY FVESNQDPDF VEDETIYDGL NLQSNEAIAH 

       250        260        270        280        290        300 
EVAQYFASQN AEDNNTSDAN ESLQDISKLS KKEQRKLERE AKKAAKLAAK NATGAAIPVA 

       310        320        330        340        350        360 
GPSSTPSPVI PVADASKETE RSPSSSPIHN ATKPEEAVKT SIKSPRSSAD NLLPSLQKSP 

       370        380        390        400        410        420 
SSATPETPTN VHTHIHQTPN GITGATTLKP ATLPAKPAGE LKWAVAASQA VEKDRKVTSA 

       430        440        450        460        470        480 
SSTISNTSTK TPTTAAATTT SSNANSRIGS ALNTPKLSTS SLSLQPDNTG ASSSAATAAA 

       490        500        510        520        530        540 
VLAAGAAAVH QNNQAFYRNM SSSHHPLVSL ATNPKSEHEV ATTVNQNGPE NTTKKVMEQK 

       550        560        570        580        590        600 
EEESPEERNK LQVPTFGVFD DDFESDRDSE TEPEEEEQPS TPKYLSLEQR EAKTNEIKKE 

       610        620        630        640        650        660 
FVSDFETLLL PSGVQEFIMS SELYNSQIES KITYKRSRDM CEISRLVEVP QGVNPPSPLD 

       670        680        690        700        710        720 
AFRSTQQWDV MRCSLRDIII GSERLKEDSS SIYAKILENF RTLEMFSLFY NYYFAITPLE 

       730        740        750        760        770        780 
REIAYKILNE RDWKVSKDGT MWFLRQGEVK FFNEICEVGD YKIFKLDDWT VIDKINFRLD 

       790        800        810        820        830 
YSFLQPPVDT ASEVRDVSVD NNNVNDQSNV TLEQQKQEIS HGKQLLKQLK QGKISV

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Nucleotide sequence of the yeast cell division cycle start genes CDC28, CDC36, CDC37, and CDC39, and a structural analysis of the predicted products." Ferguson J., Ho J.-Y., Peterson T.A., Reed S.I. Nucleic Acids Res. 14:6681-6697(1986) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome IX." Churcher C.M., Bowman S., Badcock K., Bankier A.T., Brown D., Chillingworth T., Connor R., Devlin K., Gentles S., Hamlin N., Harris D.E., Horsnell T., Hunt S., Jagels K., Jones M., Lye G., Moule S., Odell C. Barrell B.G. Nature 387:84-87(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[3]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[4]	"Approaching a complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae." Hu Y., Rolfs A., Bhullar B., Murthy T.V.S., Zhu C., Berger M.F., Camargo A.A., Kelley F., McCarron S., Jepson D., Richardson A., Raphael J., Moreira D., Taycher E., Zuo D., Mohr S., Kane M.F., Williamson J. LaBaer J. Genome Res. 17:536-543(2007) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[5]	"NOT1(CDC39), NOT2(CDC36), NOT3, and NOT4 encode a global-negative regulator of transcription that differentially affects TATA-element utilization." Collart M.A., Struhl K. Genes Dev. 8:525-537(1994) [PubMed] [Europe PMC] [Abstract] Cited for: CHARACTERIZATION.
[6]	"The NOT proteins are part of the CCR4 transcriptional complex and affect gene expression both positively and negatively." Liu H.Y., Badarinarayana V., Audino D.C., Rappsilber J., Mann M., Denis C.L. EMBO J. 17:1096-1106(1998) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION IN THE CCR4-NOT CORE COMPLEX, FUNCTION OF THE CCR4-NOT CORE COMPLEX IN TRANSCRIPTIONAL REGULATION.
[7]	"Purification and characterization of the 1.0 MDa CCR4-NOT complex identifies two novel components of the complex." Chen J., Rappsilber J., Chiang Y.C., Russell P., Mann M., Denis C.L. J. Mol. Biol. 314:683-694(2001) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION IN THE CCR4-NOT CORE COMPLEX.
[8]	"Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae." Ficarro S.B., McCleland M.L., Stukenberg P.T., Burke D.J., Ross M.M., Shabanowitz J., Hunt D.F., White F.M. Nat. Biotechnol. 20:301-305(2002) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-442; SER-446; SER-450 AND THR-454, MASS SPECTROMETRY. Strain: 2124.
[9]	"Global analysis of protein expression in yeast." Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S. Nature 425:737-741(2003) [PubMed] [Europe PMC] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[10]	"Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway." Gruhler A., Olsen J.V., Mohammed S., Mortensen P., Faergeman N.J., Mann M., Jensen O.N. Mol. Cell. Proteomics 4:310-327(2005) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-454, MASS SPECTROMETRY. Strain: YAL6B.
[11]	"Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae." Li X., Gerber S.A., Rudner A.D., Beausoleil S.A., Haas W., Villen J., Elias J.E., Gygi S.P. J. Proteome Res. 6:1190-1197(2007) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-450; THR-454 AND SER-657, MASS SPECTROMETRY. Strain: ADR376.
[12]	"Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry." Chi A., Huttenhower C., Geer L.Y., Coon J.J., Syka J.E.P., Bai D.L., Shabanowitz J., Burke D.J., Troyanskaya O.G., Hunt D.F. Proc. Natl. Acad. Sci. U.S.A. 104:2193-2198(2007) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-322; SER-326; SER-344 AND THR-373, MASS SPECTROMETRY.
[13]	"Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases." Smolka M.B., Albuquerque C.P., Chen S.H., Zhou H. Proc. Natl. Acad. Sci. U.S.A. 104:10364-10369(2007) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-322; SER-324; SER-326; SER-344; SER-347 AND SER-348, MASS SPECTROMETRY.
[14]	"A multidimensional chromatography technology for in-depth phosphoproteome analysis." Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H. Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-257; SER-344; SER-347; SER-348; SER-442; SER-450; THR-454; SER-460; SER-565 AND SER-657, MASS SPECTROMETRY.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	Z46861 Genomic DNA. Translation: CAA86913.1. X04289 Genomic DNA. Translation: CAA27837.1. AY692897 Genomic DNA. Translation: AAT92916.1. BK006942 Genomic DNA. Translation: DAA08510.1.
PIR	S49940.
RefSeq	NP_012226.3. NM_001179388.3.
3D structure databases
ProteinModelPortal	P06102.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-2256N.
IntAct	P06102. 43 interactions.
MINT	MINT-426406.
STRING	4932.YIL038C.
Proteomic databases
PaxDb	P06102.
PeptideAtlas	P06102.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YIL038C; YIL038C; YIL038C.
GeneID	854773.
KEGG	sce:YIL030C. sce:YIL038C.
Organism-specific databases
CYGD	YIL038c.
SGD	S000001300. NOT3.
Phylogenomic databases
eggNOG	COG5665.
GeneTree	ENSGT00390000014743.
HOGENOM	HOG000113831.
KO	K10661. K12580.
OMA	MEKYKAV.
OrthoDB	EOG4NW2V3.
Gene expression databases
Genevestigator	P06102.
GermOnline	YIL038C. Saccharomyces cerevisiae.
Family and domain databases
InterPro	IPR012270. CCR4-NOT_su3/5. IPR007282. NOT. IPR007207. Not_N. [Graphical view]
Pfam	PF04153. NOT2_3_5. 1 hit. PF04065. Not3. 1 hit. [Graphical view]
PIRSF	PIRSF005290. NOT_su_3_5. 1 hit.
ProtoNet	Search...
Other
NextBio	977541.

Entry information

Entry name

NOT3_YEAST

Accession

Primary (citable) accession number: P06102
Secondary accession number(s): D6VVP4, Q6B233

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 1, 1988
Last sequence update:	February 1, 1995
Last modified:	April 3, 2013
This is version 128 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program

Relevant documents

Yeast

Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD

Yeast chromosome IX

Yeast (Saccharomyces cerevisiae) chromosome IX: entries and gene names

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Sequence annotation (Features)

Molecule processing

Regions

Amino acid modifications

Experimental info

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents