P25655 (NOT1_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
General negative regulator of transcription subunit 1

Alternative name(s):
Cell division cycle protein 39

Gene names

Name:	CDC39
Synonyms:	NOT1, ROS1
Ordered Locus Names:	YCR093W
ORF Names:	YCR93W, YCR1151

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

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

Protein attributes

Sequence length	2108 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.7
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. In the complex interacts with CCR4, POP2, NOT2, NOT4 and NOT5. The core complex probably is part of a less characterized 1.9 MDa CCR4-NOT complex. Ref.8 Ref.9
Subcellular location	Cytoplasm. Nucleus Ref.10.
Miscellaneous	Present with 4300 molecules/cell in log phase SD medium. Ref.12
Sequence similarities	Belongs to the CNOT1 family.

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	negative regulation of transcription from RNA polymerase II promoter Traceable author statement Ref.6. Source: SGD nuclear-transcribed mRNA poly(A) tail shortening Inferred from direct assay Ref.10. Source: SGD pseudohyphal growth Inferred from mutant phenotype. Source: SGD regulation of cell cycle Inferred from mutant phenotype. Source: SGD response to pheromone involved in conjugation with cellular fusion Inferred from mutant phenotype. Source: SGD transcription elongation from RNA polymerase II promoter Inferred from mutant phenotype. Source: SGD
Cellular component	CCR4-NOT core complex Inferred from physical interaction Ref.8. Source: SGD cytoplasm Inferred from direct assay Ref.10. Source: SGD
Molecular function	protein binding Inferred from physical interaction. Source: IntAct
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
CAF130	P53280	6	EBI-12139,EBI-23322
CAF40	P53829	9	EBI-12139,EBI-28306
CCR4	P31384	8	EBI-12139,EBI-4396
MOT2	P34909	4	EBI-12139,EBI-12174
NOT3	P06102	3	EBI-12139,EBI-12165
POP2	P39008	8	EBI-12139,EBI-13629

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 2108	2108	General negative regulator of transcription subunit 1		PRO_0000096955
Regions
	Coiled coil	795 – 813	19	Potential
	Coiled coil	1021 – 1046	26	Potential
	Compositional bias	1009 – 1046	38	Gln-rich
	Compositional bias	1300 – 1329	30	Gln-rich
Amino acid modifications
	Modified residue	1260	1	Phosphothreonine Ref.14
	Modified residue	2102	1	Phosphothreonine Ref.11 Ref.13 Ref.14
Experimental info
	Sequence conflict	526	1	T → A in CAA49721. Ref.1
	Sequence conflict	569	1	A → R in CAA49721. Ref.1

Sequences

	Sequence		Length	Mass (Da)
	P25655 [UniParc]. Last modified October 5, 2010. Version 3. Checksum: 5B2AE15BCF95E009	FASTA	2,108	240,279
	10 20 30 40 50 60 MLSATYRDLN TASNLETSKE KQAAQIVIAQ ISLLFTTLNN DNFESVEREI RHILDRSSVD 70 80 90 100 110 120 IYIKVWERLL TLSSRDILQA GKFLLQENLL HRLLLEFAKD LPKKSTDLIE LLKERTFNNQ 130 140 150 160 170 180 EFQKQTGITL SLFIDLFDKS ANKDIIESLD RSSQINDFKT IKMNHTNYLR NFFLQTTPET 190 200 210 220 230 240 LESNLRDLLH SLEGESLNDL LALLLSEILS PGSQNLQNDP TRSWLTPPMV LDATNRGNVI 250 260 270 280 290 300 ARSISSLQAN QINWNRVFNL MSTKYFLSAP LMPTTASLSC LFAALHDGPV IDEFFSCDWK 310 320 330 340 350 360 VIFKLDLAIQ LHKWSVQNGC FDLLNAEGTR KVSETIPNTK QSLLYLLSIA SLNLELFLQR 370 380 390 400 410 420 EELSDGPMLA YFQECFFEDF NYAPEYLILA LVKEMKRFVL LIENRTVIDE ILITLLIQVH 430 440 450 460 470 480 NKSPSSFKDV ISTITDDSKI VDAAKIIINS DDAPIANFLK SLLDTGRLDT VINKLPFNEA 490 500 510 520 530 540 FKILPCARQI GWEGFDTFLK TKVSPSNVDV VLESLEVQTK MTDTNTPFRS LKTFDLFAFH 550 560 570 580 590 600 SLIEVLNKCP LDVLQLQRFE SLEFSLLIAF PRLINFGFGH DEAILANGDI AGINNDIEKE 610 620 630 640 650 660 MQNYLQKMYS GELAIKDVIE LLRRLRDSDL PRDQEVFTCI THAVIAESTF FQDYPLDALA 670 680 690 700 710 720 TTSVLFGSMI LFQLLRGFVL DVAFRIIMRF AKEPPESKMF KFAVQAIYAF RIRLAEYPQY 730 740 750 760 770 780 CKDLLRDVPA LKSQAQVYQS IVEAATLANA PKERSRPVQE MIPLKFFAVD EVSCQINQEG 790 800 810 820 830 840 APKDVVEKVL FVLNNVTLAN LNNKVDELKK SLTPNYFSWF STYLVTQRAK TEPNYHDLYS 850 860 870 880 890 900 KVIVAMGSGL LHQFMVNVTL RQLFVLLSTK DEQAIDKKHL KNLASWLGCI TLALNKPIKH 910 920 930 940 950 960 KNIAFREMLI EAYKENRLEI VVPFVTKILQ RASESKIFKP PNPWTVGILK LLIELNEKAN 970 980 990 1000 1010 1020 WKLSLTFEVE VLLKSFNLTT KSLKPSNFIN TPEVIETLSG ALGSITLEQQ QTEQQRQIIL 1030 1040 1050 1060 1070 1080 MQQHQQQMLI YQQRQQQQQQ RQQQQQHHIS ANTIADQQAA FGGEGSISHD NPFNNLLGST 1090 1100 1110 1120 1130 1140 IFVTHPDLKR VFQMALAKSV REILLEVVEK SSGIAVVTTT KIILKDFATE VDESKLKTAA 1150 1160 1170 1180 1190 1200 IIMVRHLAQS LARATSIEPL KEGIRSTMQS LAPNLMSLSS SPAEELDTAI NENIGIALVL 1210 1220 1230 1240 1250 1260 IEKASMDKST QDLADQLMQA IAIRRYHKER RADQPFITQN TNPYSLSLPE PLGLKNTGVT 1270 1280 1290 1300 1310 1320 PQQFRVYEEF GKNIPNLDVI PFAGLPAHAP PMTQNVGLTQ PQQQQAQMPT QILTSEQIRA 1330 1340 1350 1360 1370 1380 QQQQQQLQKS RLNQPSQSAQ PPGVNVPNPQ GGIAAVQSDL EQNQRVLVHL MDILVSQIKE 1390 1400 1410 1420 1430 1440 NATKNNLAEL GDQNQIKTII FQILTFIAKS AQKDQLALKV SQAVVNSLFA TSESPLCREV 1450 1460 1470 1480 1490 1500 LSLLLEKLCS LSLVARKDVV WWLVYALDSR KFNVPVIRSL LEVNLIDATE LDNVLVTAMK 1510 1520 1530 1540 1550 1560 NKMENSTEFA MKLIQNTVLS DDPILMRMDF IKTLEHLASS EDENVKKFIK EFEDTKIMPV 1570 1580 1590 1600 1610 1620 RKGTKTTRTE KLYLVFTEWV KLLQRVENND VITTVFIKQL VEKGVISDTD NLLTFVKSSL 1630 1640 1650 1660 1670 1680 ELSVSSFKES DPTDEVFIAI DALGSLIIKL LILQGFKDDT RRDYINAIFS VIVLVFAKDH 1690 1700 1710 1720 1730 1740 SQEGTTFNER PYFRLFSNIL YEWATIRTHN FVRISDSSTR QELIEFDSVF YNTFSGYLHA 1750 1760 1770 1780 1790 1800 LQPFAFPGFS FAWVTLLSHR MLLPIMLRLP NKIGWEKLML LIIDLFKFLD QYTSKHAVSD 1810 1820 1830 1840 1850 1860 AVSVVYKGTL RVILGISNDM PSFLIENHYE LMNNLPPTYF QLKNVILSAI PKNMTVPNPY 1870 1880 1890 1900 1910 1920 DVDLNMEDIP ACKELPEVFF DPVIDLHSLK KPVDNYLRIP SNSLLRTILS AIYKDTYDIK 1930 1940 1950 1960 1970 1980 KGVGYDFLSV DSKLIRAIVL HVGIEAGIEY KRTSSNAVFN TKSSYYTLLF NLIQNGSIEM 1990 2000 2010 2020 2030 2040 KYQIILSIVE QLRYPNIHTY WFSFVLMNMF KSDEWNDQKL EVQEIILRNF LKRIIVNKPH 2050 2060 2070 2080 2090 2100 TWGVSVFFTQ LINNNDINLL DLPFVQSVPE IKLILQQLVK YSKKYTTSEQ DDQSATINRR QTPLQSNA

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"CDC39, an essential nuclear protein that negatively regulates transcription and differentially affects the constitutive and inducible HIS3 promoters." Collart M.A., Struhl K. EMBO J. 12:177-186(1993) [PubMed: 8428577] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], CHARACTERIZATION. Strain: KY803.
[2]	Erratum Collart M.A., Struhl K. EMBO J. 12:2990-2990(1993)
[3]	"The complete DNA sequence of yeast chromosome III." Oliver S.G., van der Aart Q.J.M., Agostoni-Carbone M.L., Aigle M., Alberghina L., Alexandraki D., Antoine G., Anwar R., Ballesta J.P.G., Benit P., Berben G., Bergantino E., Biteau N., Bolle P.-A., Bolotin-Fukuhara M., Brown A., Brown A.J.P., Buhler J.-M. , Carcano C., Carignani G., Cederberg H., Chanet R., Contreras R., Crouzet M., Daignan-Fornier B., Defoor E., Delgado M.D., Demolder J., Doira C., Dubois E., Dujon B., Duesterhoeft A., Erdmann D., Esteban M., Fabre F., Fairhead C., Faye G., Feldmann H., Fiers W., Francingues-Gaillard M.-C., Franco L., Frontali L., Fukuhara H., Fuller L.J., Galland P., Gent M.E., Gigot D., Gilliquet V., Glansdorff N., Goffeau A., Grenson M., Grisanti P., Grivell L.A., de Haan M., Haasemann M., Hatat D., Hoenicka J., Hegemann J.H., Herbert C.J., Hilger F., Hohmann S., Hollenberg C.P., Huse K., Iborra F., Indge K.J., Isono K., Jacq C., Jacquet M., James C.M., Jauniaux J.-C., Jia Y., Jimenez A., Kelly A., Kleinhans U., Kreisl P., Lanfranchi G., Lewis C., van der Linden C.G., Lucchini G., Lutzenkirchen K., Maat M.J., Mallet L., Mannhaupt G., Martegani E., Mathieu A., Maurer C.T.C., McConnell D., McKee R.A., Messenguy F., Mewes H.-W., Molemans F., Montague M.A., Muzi Falconi M., Navas L., Newlon C.S., Noone D., Pallier C., Panzeri L., Pearson B.M., Perea J., Philippsen P., Pierard A., Planta R.J., Plevani P., Poetsch B., Pohl F.M., Purnelle B., Ramezani Rad M., Rasmussen S.W., Raynal A., Remacha M.A., Richterich P., Roberts A.B., Rodriguez F., Sanz E., Schaaff-Gerstenschlaeger I., Scherens B., Schweitzer B., Shu Y., Skala J., Slonimski P.P., Sor F., Soustelle C., Spiegelberg R., Stateva L.I., Steensma H.Y., Steiner S., Thierry A., Thireos G., Tzermia M., Urrestarazu L.A., Valle G., Vetter I., van Vliet-Reedijk J.C., Voet M., Volckaert G., Vreken P., Wang H., Warmington J.R., von Wettstein D., Wicksteed B.L., Wilson C., Wurst H., Xu G., Yoshikawa A., Zimmermann F.K., Sgouros J.G. Nature 357:38-46(1992) [PubMed: 1574125] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[4]	Valles G., Volckaerts G. Submitted (JUN-2001) to the EMBL/GenBank/DDBJ databases Cited for: SEQUENCE REVISION TO 1298.
[5]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[6]	"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: 7926748] [Abstract] Cited for: CHARACTERIZATION.
[7]	"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: 9463387] [Abstract] Cited for: IDENTIFICATION IN THE CCR4-NOT CORE COMPLEX, FUNCTION OF THE CCR4-NOT CORE COMPLEX IN TRANSCRIPTIONAL REGULATION.
[8]	"The CCR4 and CAF1 proteins of the CCR4-NOT complex are physically and functionally separated from NOT2, NOT4, and NOT5." Bai Y., Salvadore C., Chiang Y.C., Collart M.A., Liu H.Y., Denis C.L. Mol. Cell. Biol. 19:6642-6651(1999) [PubMed: 10490603] [Abstract] Cited for: INTERACTION WITH CCR4; POP2; NOT2; NOT4 AND NOT5.
[9]	"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: 11733989] [Abstract] Cited for: IDENTIFICATION IN THE CCR4-NOT CORE COMPLEX, INTERACTION WITH CAF40 AND CAF130.
[10]	"Ccr4p is the catalytic subunit of a Ccr4p/Pop2p/Notp mRNA deadenylase complex in Saccharomyces cerevisiae." Tucker M., Staples R.R., Valencia-Sanchez M.A., Muhlrad D., Parker R. EMBO J. 21:1427-1436(2002) [PubMed: 11889048] [Abstract] Cited for: SUBCELLULAR LOCATION.
[11]	"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: 11875433] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-2102, MASS SPECTROMETRY. Strain: 2124.
[12]	"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: 14562106] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[13]	"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: 15665377] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-2102, MASS SPECTROMETRY. Strain: YAL6B.
[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: 18407956] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-1260 AND THR-2102, MASS SPECTROMETRY.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	X70151 Genomic DNA. Translation: CAA49721.1. X59720 Genomic DNA. Translation: CAA42248.2. BK006937 Genomic DNA. Translation: DAA07562.1.
PIR	S28417.
RefSeq	NP_010017.2. NM_001178799.1.
3D structure databases
ProteinModelPortal	P25655.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-1202N.
IntAct	P25655. 43 interactions.
MINT	MINT-383459.
STRING	P25655.
Proteomic databases
PeptideAtlas	P25655.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YCR093W; YCR093W; YCR093W.
GeneID	850455.
KEGG	sce:YCR093W.
Organism-specific databases
SGD	S000000689. CDC39.
Phylogenomic databases
eggNOG	fuNOG07322.
GeneTree	EFGT00050000003009.
HOGENOM	HBG204068.
OMA	PRLINFG.
OrthoDB	EOG43XZBJ.
Gene expression databases
ArrayExpress	P25655.
Genevestigator	P25655.
GermOnline	YCR093W. Saccharomyces cerevisiae.
Family and domain databases
InterPro	IPR007196. CCR4-Not_Not1_C. IPR024557. CCR4-Not_Not1su_DUF3819. [Graphical view]
KO	K12604.
Pfam	PF12842. DUF3819. 1 hit. PF04054. Not1. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

NOT1_YEAST

Accession

Primary (citable) accession number: P25655
Secondary accession number(s): D6VR93

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 1, 1992
Last sequence update:	October 5, 2010
Last modified:	December 14, 2011
This is version 111 of the entry and version 3 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program