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Protein

Exosome complex component MTR3

Gene

EXOSC6

Organism
Homo sapiens (Human)
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 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.1 Publication

Caution

The six exosome core subunits containing a RNase PH-domain are not phosphorolytically active.Curated

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionRNA-binding
Biological processrRNA processing

Enzyme and pathway databases

ReactomeiR-HSA-380994 ATF4 activates genes
R-HSA-429958 mRNA decay by 3' to 5' exoribonuclease
R-HSA-450385 Butyrate Response Factor 1 (BRF1) binds and destabilizes mRNA
R-HSA-450513 Tristetraprolin (TTP, ZFP36) binds and destabilizes mRNA
R-HSA-450604 KSRP (KHSRP) binds and destabilizes mRNA
R-HSA-6791226 Major pathway of rRNA processing in the nucleolus and cytosol

Names & Taxonomyi

Protein namesi
Recommended name:
Exosome complex component MTR3
Alternative name(s):
Exosome component 6
mRNA transport regulator 3 homolog
Short name:
hMtr3
p11
Gene namesi
Name:EXOSC6
Synonyms:MTR3
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 16

Organism-specific databases

EuPathDBiHostDB:ENSG00000223496.2
HGNCiHGNC:19055 EXOSC6
MIMi606490 gene
neXtProtiNX_Q5RKV6

Subcellular locationi

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

Keywords - Cellular componenti

Cytoplasm, Exosome, Nucleus

Pathology & Biotechi

Organism-specific databases

DisGeNETi118460
OpenTargetsiENSG00000223496
PharmGKBiPA134932096

Polymorphism and mutation databases

BioMutaiEXOSC6
DMDMi74736141

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002874781 – 272Exosome complex component MTR3Add BLAST272

Proteomic databases

EPDiQ5RKV6
MaxQBiQ5RKV6
PaxDbiQ5RKV6
PeptideAtlasiQ5RKV6
PRIDEiQ5RKV6
ProteomicsDBi63753
TopDownProteomicsiQ5RKV6

PTM databases

iPTMnetiQ5RKV6
PhosphoSitePlusiQ5RKV6
SwissPalmiQ5RKV6

Expressioni

Gene expression databases

BgeeiENSG00000223496 Expressed in 207 organ(s), highest expression level in buccal mucosa cell
CleanExiHS_EXOSC6
GenevisibleiQ5RKV6 HS

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.2 Publications

Protein-protein interaction databases

BioGridi125608, 62 interactors
ComplexPortaliCPX-476 Nuclear exosome complex, DIS3-EXOSC10 variant
CPX-591 Nucleolar exosome complex, EXOSC10 variant
CPX-592 Cytoplasmic exosome complex, DIS3L variant
CPX-593 Exosome complex, DIS3 variant
CPX-600 Cytoplasmic exosome complex, DIS3L-EXOSC10 variant
CORUMiQ5RKV6
DIPiDIP-61038N
IntActiQ5RKV6, 20 interactors
MINTiQ5RKV6
STRINGi9606.ENSP00000398597

Structurei

Secondary structure

1272
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliQ5RKV6
SMRiQ5RKV6
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ5RKV6

Family & Domainsi

Sequence similaritiesi

Belongs to the RNase PH family.Curated

Phylogenomic databases

eggNOGiKOG1068 Eukaryota
COG0689 LUCA
GeneTreeiENSGT00550000074804
HOGENOMiHOG000229515
HOVERGENiHBG057826
InParanoidiQ5RKV6
KOiK12587
OMAiCDFRRAP
OrthoDBiEOG091G0XZ0
PhylomeDBiQ5RKV6
TreeFamiTF323886

Family and domain databases

Gene3Di3.30.230.70, 1 hit
InterProiView protein in InterPro
IPR001247 ExoRNase_PH_dom1
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
SUPFAMiSSF54211 SSF54211, 1 hit
SSF55666 SSF55666, 1 hit

Sequencei

Sequence statusi: Complete.

Q5RKV6-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MPGDHRRIRG PEESQPPQLY AADEEEAPGT RDPTRLRPVY ARAGLLSQAK
60 70 80 90 100
GSAYLEAGGT KVLCAVSGPR QAEGGERGGG PAGAGGEAPA ALRGRLLCDF
110 120 130 140 150
RRAPFAGRRR RAPPGGCEER ELALALQEAL EPAVRLGRYP RAQLEVSALL
160 170 180 190 200
LEDGGSALAA ALTAAALALA DAGVEMYDLV VGCGLSLAPG PAPTWLLDPT
210 220 230 240 250
RLEEERAAAG LTVALMPVLN QVAGLLGSGE GGLTESWAEA VRLGLEGCQR
260 270
LYPVLQQSLV RAARRRGAAA QP
Length:272
Mass (Da):28,235
Last modified:December 21, 2004 - v1
Checksum:iF31729E0D1545F94
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC009060 Genomic DNA No translation available.
BC052252 mRNA Translation: AAH52252.1
CCDSiCCDS10887.1
RefSeqiNP_478126.1, NM_058219.2
UniGeneiHs.660633
Hs.744085

Genome annotation databases

EnsembliENST00000435634; ENSP00000398597; ENSG00000223496
GeneIDi118460
KEGGihsa:118460
UCSCiuc002eym.2 human

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC009060 Genomic DNA No translation available.
BC052252 mRNA Translation: AAH52252.1
CCDSiCCDS10887.1
RefSeqiNP_478126.1, NM_058219.2
UniGeneiHs.660633
Hs.744085

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2NN6X-ray3.35F1-272[»]
6D6Qelectron microscopy3.45F1-272[»]
6D6Relectron microscopy3.45F1-272[»]
6H25electron microscopy3.80F1-272[»]
ProteinModelPortaliQ5RKV6
SMRiQ5RKV6
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi125608, 62 interactors
ComplexPortaliCPX-476 Nuclear exosome complex, DIS3-EXOSC10 variant
CPX-591 Nucleolar exosome complex, EXOSC10 variant
CPX-592 Cytoplasmic exosome complex, DIS3L variant
CPX-593 Exosome complex, DIS3 variant
CPX-600 Cytoplasmic exosome complex, DIS3L-EXOSC10 variant
CORUMiQ5RKV6
DIPiDIP-61038N
IntActiQ5RKV6, 20 interactors
MINTiQ5RKV6
STRINGi9606.ENSP00000398597

PTM databases

iPTMnetiQ5RKV6
PhosphoSitePlusiQ5RKV6
SwissPalmiQ5RKV6

Polymorphism and mutation databases

BioMutaiEXOSC6
DMDMi74736141

Proteomic databases

EPDiQ5RKV6
MaxQBiQ5RKV6
PaxDbiQ5RKV6
PeptideAtlasiQ5RKV6
PRIDEiQ5RKV6
ProteomicsDBi63753
TopDownProteomicsiQ5RKV6

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000435634; ENSP00000398597; ENSG00000223496
GeneIDi118460
KEGGihsa:118460
UCSCiuc002eym.2 human

Organism-specific databases

CTDi118460
DisGeNETi118460
EuPathDBiHostDB:ENSG00000223496.2
GeneCardsiEXOSC6
HGNCiHGNC:19055 EXOSC6
MIMi606490 gene
neXtProtiNX_Q5RKV6
OpenTargetsiENSG00000223496
PharmGKBiPA134932096
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1068 Eukaryota
COG0689 LUCA
GeneTreeiENSGT00550000074804
HOGENOMiHOG000229515
HOVERGENiHBG057826
InParanoidiQ5RKV6
KOiK12587
OMAiCDFRRAP
OrthoDBiEOG091G0XZ0
PhylomeDBiQ5RKV6
TreeFamiTF323886

Enzyme and pathway databases

ReactomeiR-HSA-380994 ATF4 activates genes
R-HSA-429958 mRNA decay by 3' to 5' exoribonuclease
R-HSA-450385 Butyrate Response Factor 1 (BRF1) binds and destabilizes mRNA
R-HSA-450513 Tristetraprolin (TTP, ZFP36) binds and destabilizes mRNA
R-HSA-450604 KSRP (KHSRP) binds and destabilizes mRNA
R-HSA-6791226 Major pathway of rRNA processing in the nucleolus and cytosol

Miscellaneous databases

ChiTaRSiEXOSC6 human
EvolutionaryTraceiQ5RKV6
GenomeRNAii118460
PROiPR:Q5RKV6
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000223496 Expressed in 207 organ(s), highest expression level in buccal mucosa cell
CleanExiHS_EXOSC6
GenevisibleiQ5RKV6 HS

Family and domain databases

Gene3Di3.30.230.70, 1 hit
InterProiView protein in InterPro
IPR001247 ExoRNase_PH_dom1
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
SUPFAMiSSF54211 SSF54211, 1 hit
SSF55666 SSF55666, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiEXOS6_HUMAN
AccessioniPrimary (citable) accession number: Q5RKV6
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 15, 2007
Last sequence update: December 21, 2004
Last modified: November 7, 2018
This is version 128 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Human chromosome 16
    Human chromosome 16: entries, gene names and cross-references to MIM
  3. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  4. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

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