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Protein

Exosome complex component RRP4

Gene

Exosc2

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript 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 promoter-upstream transcripts (PROMPTs), and of mRNAs with processing defects, thereby limiting or excluding their export to the cytoplasm. The RNA exosome may be involved in Ig class switch recombination (CSR) and/or Ig variable region somatic hypermutation (SHM) by targeting AICDA deamination activity to transcribed dsDNA substrates. In the cytoplasm, the RNA exosome complex is involved in general mRNA turnover and specifically degrades inherently unstable mRNAs containing AU-rich elements (AREs) within their 3' untranslated regions, and in RNA surveillance pathways, preventing translation of aberrant mRNAs. It seems to be involved in degradation of histone mRNA. 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. EXOSC2 as peripheral part of the Exo-9 complex stabilizes the hexameric ring of RNase PH-domain subunits through contacts with EXOSC4 and EXOSC7 (By similarity).By similarity

GO - Molecular functioni

  1. RNA binding Source: GO_Central

GO - Biological processi

  1. CUT catabolic process Source: GO_Central
  2. exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay Source: GO_Central
  3. exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Source: GO_Central
  4. nuclear polyadenylation-dependent rRNA catabolic process Source: GO_Central
  5. nuclear polyadenylation-dependent tRNA catabolic process Source: GO_Central
  6. nuclear retention of pre-mRNA with aberrant 3'-ends at the site of transcription Source: GO_Central
  7. nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5' Source: GO_Central
  8. polyadenylation-dependent snoRNA 3'-end processing Source: GO_Central
  9. positive regulation of cell growth Source: MGI
  10. U4 snRNA 3'-end processing Source: GO_Central
Complete GO annotation...

Keywords - Biological processi

rRNA processing

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

ReactomeiREACT_291652. mRNA decay by 3' to 5' exoribonuclease.
REACT_300665. KSRP destabilizes mRNA.

Names & Taxonomyi

Protein namesi
Recommended name:
Exosome complex component RRP4
Alternative name(s):
Exosome component 2
Ribosomal RNA-processing protein 4
Gene namesi
Name:Exosc2
Synonyms:Rrp4
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589 Componenti: Chromosome 2

Organism-specific databases

MGIiMGI:2385133. Exosc2.

Subcellular locationi

Cytoplasm By similarity. Nucleusnucleolus By similarity. Nucleus By similarity

GO - Cellular componenti

  1. cytoplasm Source: MGI
  2. cytoplasmic exosome (RNase complex) Source: GO_Central
  3. exosome (RNase complex) Source: UniProtKB
  4. nuclear exosome (RNase complex) Source: GO_Central
  5. nucleolus Source: UniProtKB-SubCell
  6. nucleus Source: MGI
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Exosome, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 293293Exosome complex component RRP4PRO_0000087130Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei124 – 1241PhosphoserineBy similarity

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiQ8VBV3.
PaxDbiQ8VBV3.
PRIDEiQ8VBV3.

PTM databases

PhosphoSiteiQ8VBV3.

Expressioni

Gene expression databases

BgeeiQ8VBV3.
CleanExiMM_EXOSC2.
ExpressionAtlasiQ8VBV3. baseline and differential.
GenevestigatoriQ8VBV3.

Interactioni

Subunit structurei

Component of the RNA exosome complex. Specifically part of the catalytically inactive RNA exosome core (Exo-9) complex which is believed to associate with catalytic subunits EXOSC10, and DIS3 or DIS3L in cytoplasmic- and nuclear-specific RNA exosome complex forms. Exo-9 is formed by a hexameric ring of RNase PH domain-containing subunits specifically containing the heterodimers EXOSC4-EXOSC9, EXOSC5-EXOSC8 and EXOSC6-EXOSC7, and peripheral S1 domain-containing components EXOSC1, EXOSC2 and EXOSC3 located on the top of the ring structure. Interacts with GTPBP1 (By similarity).By similarity

Structurei

3D structure databases

ProteinModelPortaliQ8VBV3.
SMRiQ8VBV3. Positions 25-293.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini79 – 15981S1 motifAdd
BLAST

Sequence similaritiesi

Belongs to the RRP4 family.Curated
Contains 1 S1 motif domain.Curated

Phylogenomic databases

eggNOGiCOG1097.
GeneTreeiENSGT00440000033656.
HOGENOMiHOG000193685.
HOVERGENiHBG051517.
InParanoidiQ8VBV3.
KOiK03679.
OMAiTTDTGYM.
OrthoDBiEOG7JX34R.
PhylomeDBiQ8VBV3.
TreeFamiTF105623.

Family and domain databases

InterProiIPR025721. Exosome_cplx_N_dom.
IPR026699. Exosome_RNA_bind1/RRP40/RRP4.
IPR004088. KH_dom_type_1.
IPR012340. NA-bd_OB-fold.
IPR022967. S1_dom.
[Graphical view]
PANTHERiPTHR21321. PTHR21321. 1 hit.
PfamiPF14382. ECR1_N. 1 hit.
[Graphical view]
SMARTiSM00316. S1. 1 hit.
[Graphical view]
SUPFAMiSSF50249. SSF50249. 1 hit.
SSF54791. SSF54791. 1 hit.

Sequencei

Sequence statusi: Complete.

Q8VBV3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MALEMRLPKA RKPLSESLGR DSKKHLVVPG DTITTDTGFM RGHGTYMGEE
60 70 80 90 100
KLIASVAGSV ERVNKLICVK ALKTRYNGEV GDIVVGRITE VQQKRWKVET
110 120 130 140 150
NSRLDSVLLL SSMNLPGGEL RRRSAEDELA MRGFLQEGDL ISAEVQAVFS
160 170 180 190 200
DGAVSLHTRS LKYGKLGQGV LVQVSPSLVK RQKTHFHDLP CGASVILGNN
210 220 230 240 250
GFIWIYPTPE HKDEDAGGFI ANLEPVALSD REVISRLRNC VVLLVTQRMM
260 270 280 290
LFDTSILYCY EASLAHQIKD ILKPEVMEEI MLETRQRLLD QEG
Length:293
Mass (Da):32,632
Last modified:March 1, 2002 - v1
Checksum:i832C75F57980DDF8
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC021485 mRNA. Translation: AAH21485.1.
BC021807 mRNA. Translation: AAH21807.1.
CCDSiCCDS15900.1.
RefSeqiNP_659135.1. NM_144886.2.
UniGeneiMm.150972.

Genome annotation databases

EnsembliENSMUST00000038474; ENSMUSP00000043519; ENSMUSG00000039356.
GeneIDi227715.
KEGGimmu:227715.
UCSCiuc008jdy.1. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC021485 mRNA. Translation: AAH21485.1.
BC021807 mRNA. Translation: AAH21807.1.
CCDSiCCDS15900.1.
RefSeqiNP_659135.1. NM_144886.2.
UniGeneiMm.150972.

3D structure databases

ProteinModelPortaliQ8VBV3.
SMRiQ8VBV3. Positions 25-293.
ModBaseiSearch...
MobiDBiSearch...

PTM databases

PhosphoSiteiQ8VBV3.

Proteomic databases

MaxQBiQ8VBV3.
PaxDbiQ8VBV3.
PRIDEiQ8VBV3.

Protocols and materials databases

DNASUi227715.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000038474; ENSMUSP00000043519; ENSMUSG00000039356.
GeneIDi227715.
KEGGimmu:227715.
UCSCiuc008jdy.1. mouse.

Organism-specific databases

CTDi23404.
MGIiMGI:2385133. Exosc2.

Phylogenomic databases

eggNOGiCOG1097.
GeneTreeiENSGT00440000033656.
HOGENOMiHOG000193685.
HOVERGENiHBG051517.
InParanoidiQ8VBV3.
KOiK03679.
OMAiTTDTGYM.
OrthoDBiEOG7JX34R.
PhylomeDBiQ8VBV3.
TreeFamiTF105623.

Enzyme and pathway databases

ReactomeiREACT_291652. mRNA decay by 3' to 5' exoribonuclease.
REACT_300665. KSRP destabilizes mRNA.

Miscellaneous databases

NextBioi378776.
PROiQ8VBV3.
SOURCEiSearch...

Gene expression databases

BgeeiQ8VBV3.
CleanExiMM_EXOSC2.
ExpressionAtlasiQ8VBV3. baseline and differential.
GenevestigatoriQ8VBV3.

Family and domain databases

InterProiIPR025721. Exosome_cplx_N_dom.
IPR026699. Exosome_RNA_bind1/RRP40/RRP4.
IPR004088. KH_dom_type_1.
IPR012340. NA-bd_OB-fold.
IPR022967. S1_dom.
[Graphical view]
PANTHERiPTHR21321. PTHR21321. 1 hit.
PfamiPF14382. ECR1_N. 1 hit.
[Graphical view]
SMARTiSM00316. S1. 1 hit.
[Graphical view]
SUPFAMiSSF50249. SSF50249. 1 hit.
SSF54791. SSF54791. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: FVB/N.
    Tissue: Mammary tumor.

Entry informationi

Entry nameiEXOS2_MOUSE
AccessioniPrimary (citable) accession number: Q8VBV3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 26, 2005
Last sequence update: March 1, 2002
Last modified: April 1, 2015
This is version 100 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.