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Protein

Protein CAF40

Gene

CAF40

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: 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

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
Proteomesi
  • UP000002311 Componenti: Chromosome XIV

Organism-specific databases

EuPathDBiFungiDB:YNL288W.
SGDiS000005232. CAF40.

Subcellular locationi

GO - Cellular componenti

  • CCR4-NOT core complex Source: SGD
  • cytoplasmic mRNA processing body Source: GO_Central
  • nucleus Source: UniProtKB-SubCell
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.
PeptideAtlasiP53829.

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
ALAS1P131963EBI-28306,EBI-3905054From a different organism.
AMOTL2Q9Y2J43EBI-28306,EBI-746752From a different organism.
CASP2P425753EBI-28306,EBI-520342From a different organism.
CCR4P3138410EBI-28306,EBI-4396
CDC39P2565515EBI-28306,EBI-12139
DCTDP323213EBI-28306,EBI-739870From a different organism.
DYDC1Q8WWB33EBI-28306,EBI-740680From a different organism.
GFAPP141363EBI-28306,EBI-744302From a different organism.
GMCL1Q96IK53EBI-28306,EBI-2548508From a different organism.
GOLGA2A0A0C4DGS53EBI-28306,EBI-11522202From a different organism.
HPRT1P004923EBI-28306,EBI-748210From a different organism.
KATNAL1Q9BW623EBI-28306,EBI-743591From a different organism.
MAPK1IP1LQ8NDC03EBI-28306,EBI-741424From a different organism.
MOT2P349095EBI-28306,EBI-12174
NECAB2H3BTW23EBI-28306,EBI-10172876From a different organism.
NOT3P061023EBI-28306,EBI-12165
NOT5Q125143EBI-28306,EBI-12184
NST1P539353EBI-28306,EBI-28788
NUP62P371983EBI-28306,EBI-347978From a different organism.
POP2P390088EBI-28306,EBI-13629
PRTFDC1Q9NRG13EBI-28306,EBI-739759From a different organism.
RHOXF2Q9BQY43EBI-28306,EBI-372094From a different organism.
SEC24CP539923EBI-28306,EBI-81134From a different organism.
SF3B4Q154273EBI-28306,EBI-348469From a different organism.
SSB1P114843EBI-28306,EBI-8627
THAP1Q9NVV93EBI-28306,EBI-741515From a different organism.
VPS37BQ9H9H43EBI-28306,EBI-4400866From a different organism.
ZC3H12AQ5D1E83EBI-28306,EBI-747793From a different organism.

Protein-protein interaction databases

BioGridi35549. 117 interactions.
DIPiDIP-1995N.
IntActiP53829. 72 interactions.
MINTiMINT-393536.

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
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

GeneTreeiENSGT00390000001225.
HOGENOMiHOG000192069.
InParanoidiP53829.
KOiK12606.
OMAiMLWHSCG.
OrthoDBiEOG7S7SR3.

Family and domain databases

Gene3Di1.25.10.10. 1 hit.
InterProiIPR011989. ARM-like.
IPR016024. ARM-type_fold.
IPR007216. Rcd1/Caf40.
[Graphical view]
PANTHERiPTHR12262. PTHR12262. 1 hit.
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:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
Links Updated
Z71564 Genomic DNA. Translation: CAA96205.1.
BK006947 Genomic DNA. Translation: DAA10271.1.
PIRiS63262.
RefSeqiNP_014111.1. NM_001183126.1.

3D structure databases

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

Protein-protein interaction databases

BioGridi35549. 117 interactions.
DIPiDIP-1995N.
IntActiP53829. 72 interactions.
MINTiMINT-393536.

Proteomic databases

MaxQBiP53829.
PeptideAtlasiP53829.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Organism-specific databases

EuPathDBiFungiDB:YNL288W.
SGDiS000005232. CAF40.

Phylogenomic databases

GeneTreeiENSGT00390000001225.
HOGENOMiHOG000192069.
InParanoidiP53829.
KOiK12606.
OMAiMLWHSCG.
OrthoDBiEOG7S7SR3.

Enzyme and pathway databases

BioCyciYEAST:G3O-33278-MONOMER.

Miscellaneous databases

NextBioi979301.
PROiP53829.

Family and domain databases

Gene3Di1.25.10.10. 1 hit.
InterProiIPR011989. ARM-like.
IPR016024. ARM-type_fold.
IPR007216. Rcd1/Caf40.
[Graphical view]
PANTHERiPTHR12262. PTHR12262. 1 hit.
SUPFAMiSSF48371. SSF48371. 1 hit.
ProtoNetiSearch...

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: April 13, 2016
This is version 123 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.