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P53829

- CAF40_YEAST

UniProt

P53829 - CAF40_YEAST

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Protein

Protein CAF40

Gene

CAF40

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli

Functioni

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.

GO - Biological processi

  1. positive regulation of transcription elongation from RNA polymerase II promoter Source: SGD
  2. regulation of transcription from RNA polymerase II promoter Source: SGD
  3. transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Activator, Repressor

Keywords - Biological processi

Transcription, Transcription regulation

Enzyme and pathway databases

BioCyciYEAST:G3O-33278-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Protein CAF40
Alternative name(s):
40 kDa CCR4-associated factor
Gene namesi
Name:CAF40
Ordered Locus Names:YNL288W
ORF Names:N0540
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311: Chromosome XIV

Organism-specific databases

CYGDiYNL288w.
SGDiS000005232. CAF40.

Subcellular locationi

Cytoplasm Curated. Nucleus Curated

GO - Cellular componenti

  1. CCR4-NOT core complex Source: SGD
  2. cytoplasm Source: UniProtKB-KW
  3. nucleus Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 373373Protein CAF40PRO_0000203375Add
BLAST

Proteomic databases

MaxQBiP53829.
PaxDbiP53829.
PeptideAtlasiP53829.

Expressioni

Gene expression databases

GenevestigatoriP53829.

Interactioni

Subunit structurei

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 NOT1. The core complex probably is part of a less characterized 1.9 MDa CCR4-NOT complex.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
CCR4P313848EBI-28306,EBI-4396
CDC39P256559EBI-28306,EBI-12139
MOT2P349095EBI-28306,EBI-12174
NOT3P061023EBI-28306,EBI-12165
NOT5Q125143EBI-28306,EBI-12184
NST1P539353EBI-28306,EBI-28788
POP2P390088EBI-28306,EBI-13629

Protein-protein interaction databases

BioGridi35549. 108 interactions.
DIPiDIP-1995N.
IntActiP53829. 45 interactions.
MINTiMINT-393536.
STRINGi4932.YNL288W.

Structurei

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4CV5X-ray3.81B/D54-373[»]
ProteinModelPortaliP53829.
SMRiP53829. Positions 103-370.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the RCD1 family.Curated

Phylogenomic databases

eggNOGiCOG5209.
GeneTreeiENSGT00390000001225.
HOGENOMiHOG000192069.
InParanoidiP53829.
KOiK12606.
OMAiCVASHND.
OrthoDBiEOG7S7SR3.

Family and domain databases

Gene3Di1.25.10.10. 1 hit.
InterProiIPR011989. ARM-like.
IPR016024. ARM-type_fold.
IPR007216. Rcd1.
[Graphical view]
PANTHERiPTHR12262. PTHR12262. 1 hit.
PfamiPF04078. Rcd1. 1 hit.
[Graphical view]
SUPFAMiSSF48371. SSF48371. 1 hit.

Sequencei

Sequence statusi: Complete.

P53829-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MFSAQKPIYG NGAGVNMGGG GPSTNNPGSM SMPGVPTSMG PGMNQQIPSG
60 70 80 90 100
GPMLMGNTPN NNNSNENGEN NGNNGNNGGN DANATRNNPN MVNNRGAVHA
110 120 130 140 150
LDDPNVYHWI CQLTYGPQKE QALLELGRKR EQFDDLAVVL WSSFGVMTSL
160 170 180 190 200
LNEIISVYPM LQPQMLSNNL SNRVCNALVL LQCVASHPET KHLFLQAHIP
210 220 230 240 250
LFLFPFLNTT SRQRTFEYLR LTSLGVIGAL VKNDSQDVIT FLLRTDIVPL
260 270 280 290 300
CLRIMESSSE LSKTVAIFIL QKILLDDVGL QYICATLERF YAVTNVLKDM
310 320 330 340 350
VEHLTVSTPP GRLLKHIIRC YLRLSDDLEA RRLLKIVLPA KLRDNTFTEV
360 370
LRDDVGSKRC LAQLLLTLNE ETS
Length:373
Mass (Da):41,155
Last modified:October 1, 1996 - v1
Checksum:iF3DBABE6AD3C7F3C
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
Z71564 Genomic DNA. Translation: CAA96205.1.
BK006947 Genomic DNA. Translation: DAA10271.1.
PIRiS63262.
RefSeqiNP_014111.1. NM_001183126.1.

Genome annotation databases

EnsemblFungiiYNL288W; YNL288W; YNL288W.
GeneIDi855428.
KEGGisce:YNL288W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
Z71564 Genomic DNA. Translation: CAA96205.1 .
BK006947 Genomic DNA. Translation: DAA10271.1 .
PIRi S63262.
RefSeqi NP_014111.1. NM_001183126.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
4CV5 X-ray 3.81 B/D 54-373 [» ]
ProteinModelPortali P53829.
SMRi P53829. Positions 103-370.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 35549. 108 interactions.
DIPi DIP-1995N.
IntActi P53829. 45 interactions.
MINTi MINT-393536.
STRINGi 4932.YNL288W.

Proteomic databases

MaxQBi P53829.
PaxDbi P53829.
PeptideAtlasi P53829.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblFungii YNL288W ; YNL288W ; YNL288W .
GeneIDi 855428.
KEGGi sce:YNL288W.

Organism-specific databases

CYGDi YNL288w.
SGDi S000005232. CAF40.

Phylogenomic databases

eggNOGi COG5209.
GeneTreei ENSGT00390000001225.
HOGENOMi HOG000192069.
InParanoidi P53829.
KOi K12606.
OMAi CVASHND.
OrthoDBi EOG7S7SR3.

Enzyme and pathway databases

BioCyci YEAST:G3O-33278-MONOMER.

Miscellaneous databases

NextBioi 979301.
PROi P53829.

Gene expression databases

Genevestigatori P53829.

Family and domain databases

Gene3Di 1.25.10.10. 1 hit.
InterProi IPR011989. ARM-like.
IPR016024. ARM-type_fold.
IPR007216. Rcd1.
[Graphical view ]
PANTHERi PTHR12262. PTHR12262. 1 hit.
Pfami PF04078. Rcd1. 1 hit.
[Graphical view ]
SUPFAMi SSF48371. SSF48371. 1 hit.
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "The nucleotide sequence of Saccharomyces cerevisiae chromosome XIV and its evolutionary implications."
    Philippsen P., Kleine K., Poehlmann R., Duesterhoeft A., Hamberg K., Hegemann J.H., Obermaier B., Urrestarazu L.A., Aert R., Albermann K., Altmann R., Andre B., Baladron V., Ballesta J.P.G., Becam A.-M., Beinhauer J.D., Boskovic J., Buitrago M.J.
    , Bussereau F., Coster F., Crouzet M., D'Angelo M., Dal Pero F., De Antoni A., del Rey F., Doignon F., Domdey H., Dubois E., Fiedler T.A., Fleig U., Floeth M., Fritz C., Gaillardin C., Garcia-Cantalejo J.M., Glansdorff N., Goffeau A., Gueldener U., Herbert C.J., Heumann K., Heuss-Neitzel D., Hilbert H., Hinni K., Iraqui Houssaini I., Jacquet M., Jimenez A., Jonniaux J.-L., Karpfinger-Hartl L., Lanfranchi G., Lepingle A., Levesque H., Lyck R., Maftahi M., Mallet L., Maurer C.T.C., Messenguy F., Mewes H.-W., Moestl D., Nasr F., Nicaud J.-M., Niedenthal R.K., Pandolfo D., Pierard A., Piravandi E., Planta R.J., Pohl T.M., Purnelle B., Rebischung C., Remacha M.A., Revuelta J.L., Rinke M., Saiz J.E., Sartorello F., Scherens B., Sen-Gupta M., Soler-Mira A., Urbanus J.H.M., Valle G., Van Dyck L., Verhasselt P., Vierendeels F., Vissers S., Voet M., Volckaert G., Wach A., Wambutt R., Wedler H., Zollner A., Hani J.
    Nature 387:93-98(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  2. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  3. "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, INTERACTION WITH NOT1.
  4. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiCAF40_YEAST
AccessioniPrimary (citable) accession number: P53829
Secondary accession number(s): D6W0Q5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: October 29, 2014
This is version 111 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 18800 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome XIV
    Yeast (Saccharomyces cerevisiae) chromosome XIV: entries and gene names

External Data

Dasty 3