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Protein

Exosome complex component RRP46

Gene

RRP46

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. RRP46 is part of the hexameric ring of RNase PH domain-containing subunits proposed to form a central channel which threads RNA substrates for degradation.2 Publications

Miscellaneous

Present with 10800 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-30805-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 RRP46
Alternative name(s):
Ribosomal RNA-processing protein 46
Gene namesi
Name:RRP46
Ordered Locus Names:YGR095C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome VII

Organism-specific databases

EuPathDBiFungiDB:YGR095C
SGDiS000003327 RRP46

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_00001399781 – 223Exosome complex component RRP46Add BLAST223

Proteomic databases

MaxQBiP53256
PaxDbiP53256
PRIDEiP53256

PTM databases

iPTMnetiP53256

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. Interacts with LRP1.3 Publications

Binary interactionsi

Protein-protein interaction databases

BioGridi33338, 34 interactors
ComplexPortaliCPX-599 Nuclear/nucleolar exosome complex, DIS3-RRP6 variant
CPX-603 Cytoplasmic exosome complex, DIS3 variant
DIPiDIP-6838N
IntActiP53256, 23 interactors
MINTiP53256
STRINGi4932.YGR095C

Structurei

Secondary structure

1223
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliP53256
SMRiP53256
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the RNase PH family.Curated

Phylogenomic databases

GeneTreeiENSGT00550000075002
HOGENOMiHOG000248419
InParanoidiP53256
KOiK12590
OMAiCNYRPKA
OrthoDBiEOG092C4PZH

Family and domain databases

Gene3Di3.30.230.70, 1 hit
InterProiView protein in InterPro
IPR001247 ExoRNase_PH_dom1
IPR015847 ExoRNase_PH_dom2
IPR036345 ExoRNase_PH_dom2_sf
IPR027408 PNPase/RNase_PH_dom_sf
IPR020568 Ribosomal_S5_D2-typ_fold
PfamiView protein in Pfam
PF01138 RNase_PH, 1 hit
PF03725 RNase_PH_C, 1 hit
SUPFAMiSSF54211 SSF54211, 1 hit
SSF55666 SSF55666, 1 hit

Sequencei

Sequence statusi: Complete.

P53256-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSVQAEIGIL DHVDGSSEFV SQDTKVICSV TGPIEPKARQ ELPTQLALEI
60 70 80 90 100
IVRPAKGVAT TREKVLEDKL RAVLTPLITR HCYPRQLCQI TCQILESGED
110 120 130 140 150
EAEFSLRELS CCINAAFLAL VDAGIALNSM CASIPIAIIK DTSDIIVDPT
160 170 180 190 200
AEQLKISLSV HTLALEFVNG GKVVKNVLLL DSNGDFNEDQ LFSLLELGEQ
210 220
KCQELVTNIR RIIQDNISPR LVV
Length:223
Mass (Da):24,407
Last modified:October 31, 2006 - v2
Checksum:iF1307E0EE4FC3133
GO

Sequence cautioni

The sequence CAA97098 differs from that shown. Reason: Erroneous initiation.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z72880 Genomic DNA Translation: CAA97098.1 Different initiation.
AY389297 mRNA Translation: AAQ97229.1
BK006941 Genomic DNA Translation: DAA08188.1
PIRiS64390
RefSeqiNP_011609.2, NM_001181224.1

Genome annotation databases

EnsemblFungiiYGR095C; YGR095C; YGR095C
GeneIDi852987
KEGGisce:YGR095C

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z72880 Genomic DNA Translation: CAA97098.1 Different initiation.
AY389297 mRNA Translation: AAQ97229.1
BK006941 Genomic DNA Translation: DAA08188.1
PIRiS64390
RefSeqiNP_011609.2, NM_001181224.1

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4IFDX-ray2.80D1-223[»]
4OO1X-ray3.30D1-223[»]
5C0WX-ray4.60D1-223[»]
5C0XX-ray3.81D1-223[»]
5G06electron microscopy4.20D1-223[»]
5JEAX-ray2.65D1-223[»]
5K36X-ray3.10D1-223[»]
5OKZX-ray3.20D/N/X/h1-223[»]
5VZJX-ray3.30D1-223[»]
6FSZelectron microscopy4.60DD1-223[»]
ProteinModelPortaliP53256
SMRiP53256
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi33338, 34 interactors
ComplexPortaliCPX-599 Nuclear/nucleolar exosome complex, DIS3-RRP6 variant
CPX-603 Cytoplasmic exosome complex, DIS3 variant
DIPiDIP-6838N
IntActiP53256, 23 interactors
MINTiP53256
STRINGi4932.YGR095C

PTM databases

iPTMnetiP53256

Proteomic databases

MaxQBiP53256
PaxDbiP53256
PRIDEiP53256

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYGR095C; YGR095C; YGR095C
GeneIDi852987
KEGGisce:YGR095C

Organism-specific databases

EuPathDBiFungiDB:YGR095C
SGDiS000003327 RRP46

Phylogenomic databases

GeneTreeiENSGT00550000075002
HOGENOMiHOG000248419
InParanoidiP53256
KOiK12590
OMAiCNYRPKA
OrthoDBiEOG092C4PZH

Enzyme and pathway databases

BioCyciYEAST:G3O-30805-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:P53256

Family and domain databases

Gene3Di3.30.230.70, 1 hit
InterProiView protein in InterPro
IPR001247 ExoRNase_PH_dom1
IPR015847 ExoRNase_PH_dom2
IPR036345 ExoRNase_PH_dom2_sf
IPR027408 PNPase/RNase_PH_dom_sf
IPR020568 Ribosomal_S5_D2-typ_fold
PfamiView protein in Pfam
PF01138 RNase_PH, 1 hit
PF03725 RNase_PH_C, 1 hit
SUPFAMiSSF54211 SSF54211, 1 hit
SSF55666 SSF55666, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiRRP46_YEAST
AccessioniPrimary (citable) accession number: P53256
Secondary accession number(s): D6VUM7, Q6TQU1
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 31, 2006
Last modified: September 12, 2018
This is version 150 of the entry and version 2 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. SIMILARITY comments
    Index of protein domains and families
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome VII
    Yeast (Saccharomyces cerevisiae) chromosome VII: entries and gene names
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Main funding by: National Institutes of Health

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