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Protein

Exosome complex component CSL4

Gene

CSL4

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

Functioni

Non-catalytic component of the RNA exosome complex which has 3'->5' exoribonuclease activity and participates in a multitude of cellular RNA processing and degradation events. In the nucleus, the RNA exosome complex is involved in proper maturation of stable RNA species such as rRNA, snRNA and snoRNA, in the elimination of RNA processing by-products and non-coding 'pervasive' transcripts, such as antisense RNA species and cryptic unstable transcripts (CUTs), and of mRNAs with processing defects, thereby limiting or excluding their export to the cytoplasm. In the cytoplasm, the RNA exosome complex is involved in general mRNA turnover and in RNA surveillance pathways, preventing translation of aberrant mRNAs. The catalytic inactive RNA exosome core complex of 9 subunits (Exo-9) is proposed to play a pivotal role in the binding and presentation of RNA for ribonucleolysis, and to serve as a scaffold for the association with catalytic subunits and accessory proteins or complexes.3 Publications

Miscellaneous

Present with 5550 molecules/cell in log phase SD medium.1 Publication

Caution

According to PubMed:17173052 and PubMed:17174896, only DIS3/RRP44 subunit of the exosome core has exonuclease activity.Curated

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionRNA-binding
Biological processrRNA processing

Enzyme and pathway databases

BioCyciYEAST:G3O-33232-MONOMER
ReactomeiR-SCE-429958 mRNA decay by 3' to 5' exoribonuclease
R-SCE-6791226 Major pathway of rRNA processing in the nucleolus and cytosol

Names & Taxonomyi

Protein namesi
Recommended name:
Exosome complex component CSL4
Alternative name(s):
CEP1 synthetic lethal protein 4
Gene namesi
Name:CSL4
Synonyms:SKI4
Ordered Locus Names:YNL232W
ORF Names:N1154
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XIV

Organism-specific databases

EuPathDBiFungiDB:YNL232W
SGDiS000005176 CSL4

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Exosome, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000794031 – 292Exosome complex component CSL4Add BLAST292

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei94PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP53859
PaxDbiP53859
PRIDEiP53859

PTM databases

iPTMnetiP53859

Interactioni

Subunit structurei

Component of the RNA exosome complex. Specifically part of the catalytically inactive RNA exosome core (Exo-9) complex which associates with catalytic subunits DIS3 and RRP6 in cytoplasmic- and nuclear-specific RNA exosome complex forms. Exo-9 is formed by a hexameric ring of RNase PH domain-containing subunits and peripheral S1 domain-containing components CSL4, RRP4 and RRP40 located on the top of the ring structure.2 Publications

Binary interactionsi

Protein-protein interaction databases

BioGridi35606, 439 interactors
ComplexPortaliCPX-599 Nuclear/nucleolar exosome complex, DIS3-RRP6 variant
CPX-603 Cytoplasmic exosome complex, DIS3 variant
DIPiDIP-6785N
IntActiP53859, 18 interactors
MINTiP53859
STRINGi4932.YNL232W

Structurei

Secondary structure

1292
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliP53859
SMRiP53859
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the CSL4 family.Curated

Phylogenomic databases

GeneTreeiENSGT00390000015287
HOGENOMiHOG000177330
InParanoidiP53859
KOiK07573
OMAiPKENDIV
OrthoDBiEOG092C53BP

Family and domain databases

InterProiView protein in InterPro
IPR019495 EXOSC1
IPR012340 NA-bd_OB-fold
PfamiView protein in Pfam
PF10447 EXOSC1, 1 hit
SUPFAMiSSF50249 SSF50249, 2 hits

Sequencei

Sequence statusi: Complete.

P53859-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MACNFQFPEI AYPGKLICPQ YGTENKDGED IIFNYVPGPG TKLIQYEHNG
60 70 80 90 100
RTLEAITATL VGTVRCEEEK KTDQEEEREG TDQSTEEEKS VDASPNDVTR
110 120 130 140 150
RTVKNILVSV LPGTEKGRKT NKYANNDFAN NLPKEGDIVL TRVTRLSLQR
160 170 180 190 200
ANVEILAVED KPSPIDSGIG SNGSGIVAAG GGSGAATFSV SQASSDLGET
210 220 230 240 250
FRGIIRSQDV RSTDRDRVKV IECFKPGDIV RAQVLSLGDG TNYYLTTARN
260 270 280 290
DLGVVFARAA NGAGGLMYAT DWQMMTSPVT GATEKRKCAK PF
Length:292
Mass (Da):31,583
Last modified:October 1, 1996 - v1
Checksum:i52D3416EA183583B
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z69381 Genomic DNA Translation: CAA93366.1
Z71508 Genomic DNA Translation: CAA96137.1
BK006947 Genomic DNA Translation: DAA10326.1
PIRiS63198
RefSeqiNP_014167.1, NM_001183070.1

Genome annotation databases

EnsemblFungiiYNL232W; YNL232W; YNL232W
GeneIDi855489
KEGGisce:YNL232W

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z69381 Genomic DNA Translation: CAA93366.1
Z71508 Genomic DNA Translation: CAA96137.1
BK006947 Genomic DNA Translation: DAA10326.1
PIRiS63198
RefSeqiNP_014167.1, NM_001183070.1

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4IFDX-ray2.80I1-292[»]
4OO1X-ray3.30I1-292[»]
5C0WX-ray4.60I1-292[»]
5C0XX-ray3.81I1-292[»]
5G06electron microscopy4.20I1-292[»]
5JEAX-ray2.65I1-292[»]
5K36X-ray3.10I1-292[»]
5OKZX-ray3.20I/S/c/m1-292[»]
5VZJX-ray3.30I1-292[»]
6FSZelectron microscopy4.60II1-292[»]
ProteinModelPortaliP53859
SMRiP53859
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi35606, 439 interactors
ComplexPortaliCPX-599 Nuclear/nucleolar exosome complex, DIS3-RRP6 variant
CPX-603 Cytoplasmic exosome complex, DIS3 variant
DIPiDIP-6785N
IntActiP53859, 18 interactors
MINTiP53859
STRINGi4932.YNL232W

PTM databases

iPTMnetiP53859

Proteomic databases

MaxQBiP53859
PaxDbiP53859
PRIDEiP53859

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYNL232W; YNL232W; YNL232W
GeneIDi855489
KEGGisce:YNL232W

Organism-specific databases

EuPathDBiFungiDB:YNL232W
SGDiS000005176 CSL4

Phylogenomic databases

GeneTreeiENSGT00390000015287
HOGENOMiHOG000177330
InParanoidiP53859
KOiK07573
OMAiPKENDIV
OrthoDBiEOG092C53BP

Enzyme and pathway databases

BioCyciYEAST:G3O-33232-MONOMER
ReactomeiR-SCE-429958 mRNA decay by 3' to 5' exoribonuclease
R-SCE-6791226 Major pathway of rRNA processing in the nucleolus and cytosol

Miscellaneous databases

PROiPR:P53859

Family and domain databases

InterProiView protein in InterPro
IPR019495 EXOSC1
IPR012340 NA-bd_OB-fold
PfamiView protein in Pfam
PF10447 EXOSC1, 1 hit
SUPFAMiSSF50249 SSF50249, 2 hits
ProtoNetiSearch...

Entry informationi

Entry nameiCSL4_YEAST
AccessioniPrimary (citable) accession number: P53859
Secondary accession number(s): D6W0W0
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: September 12, 2018
This is version 162 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

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

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