EXOSC6

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

RNA binding
Source: UniProtKB
Inferred from high throughput direct assayⁱ
- 22681889

View the complete GO annotation on QuickGO ...

GO - Biological processⁱ

DNA deamination
Source: UniProtKB
Inferred from direct assayⁱ
- 21255825
exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay Source: Reactome
isotype switching Source: UniProtKB
nuclear mRNA surveillance
Source: GO_Central
Inferred from biological aspect of ancestorⁱ
- 21873635
nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5'
Source: GO_Central
Inferred from biological aspect of ancestorⁱ
- 21873635
polyadenylation-dependent snoRNA 3'-end processing
Source: GO_Central
Inferred from biological aspect of ancestorⁱ
- 21873635
positive regulation of isotype switching Source: Ensembl
regulation of mRNA stability Source: Reactome
RNA phosphodiester bond hydrolysis, exonucleolytic Source: GOC
rRNA catabolic process
Source: GO_Central
Inferred from biological aspect of ancestorⁱ
- 21873635
rRNA processing Source: Reactome
U4 snRNA 3'-end processing
Source: GO_Central
Inferred from biological aspect of ancestorⁱ
- 21873635

View the complete GO annotation on QuickGO ...

Keywordsⁱ

Molecular function	RNA-binding
Biological process	rRNA processing

Enzyme and pathway databases

Reactomeⁱ	R-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

Reactomeⁱ

R-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
Organismⁱ	Homo sapiens (Human)
Taxonomic identifierⁱ	9606 [NCBI]
Taxonomic lineageⁱ	cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Dipnotetrapodomorpha › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Boreoeutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo
Proteomesⁱ	UP000005640 Componentⁱ: Chromosome 16

Organism-specific databases

EuPathDBⁱ	HostDB:ENSG00000223496.2
Human Gene Nomenclature Database More...HGNCⁱ	HGNC:19055 EXOSC6
MIMⁱ	606490 gene
neXtProtⁱ	NX_Q5RKV6

Keywords - Cellular componentⁱ

Cytoplasm, Exosome, Nucleus

Pathology & Biotechⁱ

Organism-specific databases

DisGeNET More...DisGeNETⁱ	118460
Open Targets More...OpenTargetsⁱ	ENSG00000223496
PharmGKBⁱ	PA134932096

Polymorphism and mutation databases

BioMutaⁱ	EXOSC6
DMDMⁱ	74736141

PTM / Processingⁱ

Molecule processing

Feature key	Position(s)	DescriptionActions	Graphical view	Length
ChainⁱPRO_0000287478	1 – 272	Exosome complex component MTR3Add BLAST		272

Proteomic databases

EPDⁱ	Q5RKV6
MaxQB - The MaxQuant DataBase More...MaxQBⁱ	Q5RKV6
PaxDbⁱ	Q5RKV6
PeptideAtlas More...PeptideAtlasⁱ	Q5RKV6
PRIDEⁱ	Q5RKV6
ProteomicsDBⁱ	63753
TopDownProteomicsⁱ	Q5RKV6

PTM databases

iPTMnetⁱ	Q5RKV6
PhosphoSitePlusⁱ	Q5RKV6
SwissPalmⁱ	Q5RKV6

Expressionⁱ

Gene expression databases

Bgeeⁱ	ENSG00000223496 Expressed in 207 organ(s), highest expression level in buccal mucosa cell
CleanExⁱ	HS_EXOSC6
Genevisibleⁱ	Q5RKV6 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

BioGridⁱ	125608, 62 interactors
ComplexPortalⁱ	CPX-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
CORUMⁱ	Q5RKV6
Database of interacting proteins More...DIPⁱ	DIP-61038N
IntActⁱ	Q5RKV6, 20 interactors
Molecular INTeraction database More...MINTⁱ	Q5RKV6
STRINGⁱ	9606.ENSP00000398597

Structureⁱ

Secondary structure

Legend: HelixTurnBeta strandPDB Structure known for this area

Feature key	Position(s)	DescriptionActions	Length
Helixⁱ	18 – 20	Combined sources	3
Beta strandⁱ	39 – 43	Combined sources	5
Beta strandⁱ	47 – 53	Combined sources	7
Beta strandⁱ	57 – 59	Combined sources	3
Beta strandⁱ	61 – 70	Combined sources	10
Beta strandⁱ	95 – 102	Combined sources	8
Beta strandⁱ	106 – 109	Combined sources	4
Helixⁱ	116 – 130	Combined sources	15
Turnⁱ	131 – 133	Combined sources	3
Beta strandⁱ	143 – 152	Combined sources	10
Helixⁱ	157 – 172	Combined sources	16
Beta strandⁱ	176 – 178	Combined sources	3
Beta strandⁱ	181 – 184	Combined sources	4
Beta strandⁱ	190 – 192	Combined sources	3
Beta strandⁱ	195 – 198	Combined sources	4
Turnⁱ	201 – 203	Combined sources	3
Helixⁱ	204 – 206	Combined sources	3
Beta strandⁱ	208 – 216	Combined sources	9
Turnⁱ	217 – 220	Combined sources	4
Beta strandⁱ	221 – 228	Combined sources	8
Turnⁱ	234 – 237	Combined sources	4
Helixⁱ	238 – 267	Combined sources	30

Show more details

3D structure databases

ProteinModelPortalⁱ	Q5RKV6
SMRⁱ	Q5RKV6
ModBaseⁱ	Search...
MobiDBⁱ	Search...

Miscellaneous databases

EvolutionaryTraceⁱ	Q5RKV6

EvolutionaryTraceⁱ

Q5RKV6

Family & Domainsⁱ

Sequence similaritiesⁱ

Belongs to the RNase PH family.Curated

Phylogenomic databases

eggNOGⁱ	KOG1068 Eukaryota COG0689 LUCA
Ensembl GeneTree More...GeneTreeⁱ	ENSGT00550000074804
HOGENOMⁱ	HOG000229515
HOVERGENⁱ	HBG057826
InParanoidⁱ	Q5RKV6
KEGG Orthology (KO) More...KOⁱ	K12587
OMAⁱ	CDFRRAP
Database of Orthologous Groups More...OrthoDBⁱ	EOG091G0XZ0
PhylomeDBⁱ	Q5RKV6
TreeFamⁱ	TF323886

Family and domain databases

Gene3Dⁱ	3.30.230.70, 1 hit
InterProⁱ	View protein in InterPro IPR001247 ExoRNase_PH_dom1 IPR036345 ExoRNase_PH_dom2_sf IPR027408 PNPase/RNase_PH_dom_sf IPR020568 Ribosomal_S5_D2-typ_fold
Pfam protein domain database More...Pfamⁱ	View protein in Pfam PF01138 RNase_PH, 1 hit
SUPFAMⁱ	SSF54211 SSF54211, 1 hit SSF55666 SSF55666, 1 hit

Sequenceⁱ

Sequence statusⁱ: Complete.

Q5RKV6-1 [UniParc]FASTA Add 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
The Consensus CDS (CCDS) project More...CCDSⁱ	CCDS10887.1
NCBI Reference Sequences More...RefSeqⁱ	NP_478126.1, NM_058219.2
UniGeneⁱ	Hs.660633 Hs.744085

Genome annotation databases

Ensemblⁱ	ENST00000435634; ENSP00000398597; ENSG00000223496
GeneIDⁱ	118460
KEGGⁱ	hsa:118460
UCSC genome browser More...UCSCⁱ	uc002eym.2 human

Similar proteinsⁱ

90% Identity
50% Identity

Protein	Similar proteins		Species	Score	Length	Source
Q5RKV6	Exosome complex component MTR3		MOUSE		273	UniRef90_Q5RKV6
Exosome component 6		RAT		272
Exosome component 6		PANTR		272
exosome complex component MTR3		ERIEU		272
Uncharacterized protein		FELCA		272
+57

Protein	Similar proteins		Species	Score	Length	Source
Q5RKV6	Exosome complex component MTR3		MOUSE		273	UniRef50_Q5RKV6
Exosome complex component MTR3		XENTR		270
exosome complex component MTR3		PHYCD		272
exosome complex component MTR3		DELLE		272
exosome complex component MTR3		TURTR		272
+90

Cross-referencesⁱ

Sequence databases

Select the link destinations: EMBLⁱ GenBankⁱ DDBJⁱ Links Updated	AC009060 Genomic DNA No translation available. BC052252 mRNA Translation: AAH52252.1
CCDSⁱ	CCDS10887.1
RefSeqⁱ	NP_478126.1, NM_058219.2
UniGeneⁱ	Hs.660633 Hs.744085

3D structure databases

Select the link destinations: Protein Data Bank Europe More...PDBeⁱ Protein Data Bank RCSB More...RCSB PDBⁱ Protein Data Bank Japan More...PDBjⁱ Links Updated	PDB entry	Method	Resolution (Å)	Chain	Positions	PDBsum
	2NN6	X-ray	3.35	F	1-272	[»]
	6D6Q	electron microscopy	3.45	F	1-272	[»]
	6D6R	electron microscopy	3.45	F	1-272	[»]
	6H25	electron microscopy	3.80	F	1-272	[»]
ProteinModelPortalⁱ	Q5RKV6
SMRⁱ	Q5RKV6
ModBaseⁱ	Search...
MobiDBⁱ	Search...

Protein-protein interaction databases

BioGridⁱ	125608, 62 interactors
ComplexPortalⁱ	CPX-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
CORUMⁱ	Q5RKV6
DIPⁱ	DIP-61038N
IntActⁱ	Q5RKV6, 20 interactors
MINTⁱ	Q5RKV6
STRINGⁱ	9606.ENSP00000398597

PTM databases

iPTMnetⁱ	Q5RKV6
PhosphoSitePlusⁱ	Q5RKV6
SwissPalmⁱ	Q5RKV6

Polymorphism and mutation databases

BioMutaⁱ	EXOSC6
DMDMⁱ	74736141

Proteomic databases

EPDⁱ	Q5RKV6
MaxQBⁱ	Q5RKV6
PaxDbⁱ	Q5RKV6
PeptideAtlasⁱ	Q5RKV6
PRIDEⁱ	Q5RKV6
ProteomicsDBⁱ	63753
TopDownProteomicsⁱ	Q5RKV6

Protocols and materials databases

Structural Biology Knowledgebase	Search...

Structural Biology Knowledgebase

Search...

Genome annotation databases

Ensemblⁱ	ENST00000435634; ENSP00000398597; ENSG00000223496
GeneIDⁱ	118460
KEGGⁱ	hsa:118460
UCSCⁱ	uc002eym.2 human

Organism-specific databases

CTDⁱ	118460
DisGeNETⁱ	118460
EuPathDBⁱ	HostDB:ENSG00000223496.2
GeneCardsⁱ	EXOSC6
HGNCⁱ	HGNC:19055 EXOSC6
MIMⁱ	606490 gene
neXtProtⁱ	NX_Q5RKV6
OpenTargetsⁱ	ENSG00000223496
PharmGKBⁱ	PA134932096
GenAtlas: human gene database More...GenAtlasⁱ	Search...

Phylogenomic databases

eggNOGⁱ	KOG1068 Eukaryota COG0689 LUCA
GeneTreeⁱ	ENSGT00550000074804
HOGENOMⁱ	HOG000229515
HOVERGENⁱ	HBG057826
InParanoidⁱ	Q5RKV6
KOⁱ	K12587
OMAⁱ	CDFRRAP
OrthoDBⁱ	EOG091G0XZ0
PhylomeDBⁱ	Q5RKV6
TreeFamⁱ	TF323886

Enzyme and pathway databases

Reactomeⁱ	R-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

Reactomeⁱ

R-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

ChiTaRSⁱ	EXOSC6 human
EvolutionaryTraceⁱ	Q5RKV6
GenomeRNAiⁱ	118460
Protein Ontology More...PROⁱ	PR:Q5RKV6
SOURCEⁱ	Search...

Gene expression databases

Bgeeⁱ	ENSG00000223496 Expressed in 207 organ(s), highest expression level in buccal mucosa cell
CleanExⁱ	HS_EXOSC6
Genevisibleⁱ	Q5RKV6 HS

Family and domain databases

Gene3Dⁱ	3.30.230.70, 1 hit
InterProⁱ	View protein in InterPro IPR001247 ExoRNase_PH_dom1 IPR036345 ExoRNase_PH_dom2_sf IPR027408 PNPase/RNase_PH_dom_sf IPR020568 Ribosomal_S5_D2-typ_fold
Pfamⁱ	View protein in Pfam PF01138 RNase_PH, 1 hit
SUPFAMⁱ	SSF54211 SSF54211, 1 hit SSF55666 SSF55666, 1 hit
ProtoNetⁱ	Search...

Entry informationⁱ

Entry nameⁱ	EXOS6_HUMAN
Accessionⁱ	Q5RKV6Primary (citable) accession number: Q5RKV6
Entry historyⁱ	Integrated 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 statusⁱ	Reviewed (UniProtKB/Swiss-Prot)
Annotation program	Chordata Protein Annotation Program
Disclaimer	Any 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

SIMILARITY comments
Index of protein domains and families
Human chromosome 16
Human chromosome 16: entries, gene names and cross-references to MIM
MIM cross-references
Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
PDB cross-references
Index of Protein Data Bank (PDB) cross-references

UniProtKB

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Supporting data

UniProtKB - Q5RKV6 (EXOS6_HUMAN)

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Exosome complex component MTR3

Select a section on the left to see content.

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Caution

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

Enzyme and pathway databases

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

Organism-specific databases

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Nucleus

Other locations

Cytosol

Nucleus

Other locations

Keywords - Cellular componenti

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

Organism-specific databases

Polymorphism and mutation databases

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Proteomic databases

PTM databases

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

Gene expression databases

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

Protein-protein interaction databases

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

Secondary structure

3D structure databases

Miscellaneous databases

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Phylogenomic databases

Family and domain databases

Sequence databases

Genome annotation databases

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

3D structure databases

Protein-protein interaction databases

PTM databases

Polymorphism and mutation databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Miscellaneous databases

Gene expression databases

Family and domain databases

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Documents

UniProt is an ELIXIR core data resource

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Functionⁱ

GO - Molecular functionⁱ

GO - Biological processⁱ

Names & Taxonomyⁱ

Subcellular locationⁱ

Keywords - Cellular componentⁱ

Pathology & Biotechⁱ

PTM / Processingⁱ

Expressionⁱ

Interactionⁱ

Structureⁱ

Family & Domainsⁱ

Sequence similaritiesⁱ

Cross-referencesⁱ

Entry informationⁱ

Miscellaneousⁱ

Keywords - Technical termⁱ