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Entry version 131 (10 Feb 2021)
Sequence version 2 (30 May 2000)
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Protein

Exosome complex exonuclease rrp6

Gene

rrp6

Organism
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
Status
Reviewed-Annotation score:

Annotation score:5 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Protein inferred from homologyi <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<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

Nuclear-specific 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. 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. RRP6 has 3'-5' exonuclease activity which is not modulated upon association with Exo-9 suggesting that the complex inner RNA-binding path is not used to access its active site (By similarity).By similarity

<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

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionExonuclease, Hydrolase, Nuclease, RNA-binding
Biological processrRNA processing

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...
Reactomei
R-SPO-6791226, Major pathway of rRNA processing in the nucleolus and cytosol

<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

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Exosome complex exonuclease rrp6 (EC:3.1.13.-)
Alternative name(s):
Ribosomal RNA-processing protein 6
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:rrp6
ORF Names:SPAC1F3.01, SPAC3H8.11
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiSchizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri284812 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaTaphrinomycotinaSchizosaccharomycetesSchizosaccharomycetalesSchizosaccharomycetaceaeSchizosaccharomyces
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000002485 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome I

Organism-specific databases

Schizosaccharomyces pombe database

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PomBasei
SPAC1F3.01, rrp6

Eukaryotic Pathogen, Vector and Host Database Resources

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VEuPathDBi
FungiDB:SPAC1F3.01

<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

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 & Seán O’Donoghue; Source: COMPARTMENTS

Keywords - Cellular componenti

Exosome, Nucleus

<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

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00001165951 – 777Exosome complex exonuclease rrp6Add BLAST777

Proteomic databases

MaxQB - The MaxQuant DataBase

More...
MaxQBi
Q10146

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
Q10146

PRoteomics IDEntifications database

More...
PRIDEi
Q10146

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
Q10146

SwissPalm database of S-palmitoylation events

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SwissPalmi
Q10146

<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

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction%5Fsection">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Component of the RNA exosome complex. The catalytically inactive RNA exosome core (Exo-9) complex 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. rrp6 specifically is part of the nuclear form of the RNA exosome complex; the association appears to be mediated by Exo-9 and not by dis3 (By similarity).

By similarity

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGRID)

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BioGRIDi
280044, 25 interactors

Protein interaction database and analysis system

More...
IntActi
Q10146, 2 interactors

Molecular INTeraction database

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MINTi
Q10146

STRING: functional protein association networks

More...
STRINGi
4896.SPAC1F3.01.1

<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

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

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SMRi
Q10146

Database of comparative protein structure models

More...
ModBasei
Search...

<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

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family%5Fand%5Fdomains%5Fsection">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini442 – 522HRDCPROSITE-ProRule annotationAdd BLAST81

<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

Belongs to the exosome component 10/RRP6 family.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

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eggNOGi
KOG2206, Eukaryota

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_010129_0_1_1

InParanoid: Eukaryotic Ortholog Groups

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InParanoidi
Q10146

Identification of Orthologs from Complete Genome Data

More...
OMAi
WRDHTAR

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q10146

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR002562, 3'-5'_exonuclease_dom
IPR012588, Exosome-assoc_fac_Rrp6_N
IPR010997, HRDC-like_sf
IPR002121, HRDC_dom
IPR012337, RNaseH-like_sf

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF01612, DNA_pol_A_exo1, 1 hit
PF00570, HRDC, 1 hit
PF08066, PMC2NT, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00474, 35EXOc, 1 hit
SM00341, HRDC, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF47819, SSF47819, 1 hit
SSF53098, SSF53098, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS50967, HRDC, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

Q10146-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MDESELFKGL MNSTAYCSEL AKVDIPFYKS IDTEFNENIK SVSSRFMRLI
60 70 80 90 100
ELLLSKVDRS RAEDIVDVED IDNRWAEVSD TLDILFEKAD YSIDKAQGLL
110 120 130 140 150
KKPAIETHAS TSDVANKKPK KEKLPYKVIH AAHLTKPQLR FRVQPNNSRE
160 170 180 190 200
FVWSWKLTEK PHSLVPLEKI IAQVKLDPSL KNSLPHPYEP EIQNSVYPPW
210 220 230 240 250
VSEMSNPIDT GSVDETEPIW VSTESQLSDM LKELQNSKEI AVDLEHHDYR
260 270 280 290 300
SFRGFVCLMQ ISNREKDWIV DTLELREELE ALNVVFTNPN IIKVFHGATM
310 320 330 340 350
DIIWLQRDFG LYVVNLFDTY YATKVLGFEG HGLAFLLQKY CDYDADKRYQ
360 370 380 390 400
MADWRIRPLP REMLKYAQSD THYLLYIWDH LRNELISKSA ERKENLMQSV
410 420 430 440 450
FNSSKQISLR KYELEPYDPI YGLGTDGWRN VLTKFGSSKI IGREALMIYR
460 470 480 490 500
ALHDWRDSVA RKEDESVRYV LPNRLLIAIA ASKPVEAADV FSISKQLTPI
510 520 530 540 550
ARMYVEDIVK VVQEAEKLYN EQVDREKSQF KEVEKQNQPL AVFSESNTLG
560 570 580 590 600
DYKVDSSVFE ISKQNRSKLK TLLANGSAFW IEGQSQDDLR KARKERLFIV
610 620 630 640 650
NQNIPFSLTL PCTQGHVESE LNVKQSTVTE AANPSLNGEK KQEPIVIRDL
660 670 680 690 700
GLNKQKRDSS KLNHKEPSNP IEERNEDIEP SEASTSVSKK RKQKKKKKNS
710 720 730 740 750
GKLTIEAEHV SNDSPIINEA PFDYKNQKNF IADLDSDVGK NKFGKRGFNP
760 770
LNKVSLPKRN TRELKKRKVS DGKSTSY
Length:777
Mass (Da):89,560
Last modified:May 30, 2000 - v2
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:iDB1FAC172BFB14A2
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

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EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
CU329670 Genomic DNA Translation: CAA93168.1

Protein sequence database of the Protein Information Resource

More...
PIRi
T38769

NCBI Reference Sequences

More...
RefSeqi
NP_593004.2, NM_001018403.2

Genome annotation databases

Ensembl fungal genome annotation project

More...
EnsemblFungii
SPAC1F3.01.1; SPAC1F3.01.1:pep; SPAC1F3.01

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
2543630

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
spo:SPAC1F3.01

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<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

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CU329670 Genomic DNA Translation: CAA93168.1
PIRiT38769
RefSeqiNP_593004.2, NM_001018403.2

3D structure databases

SMRiQ10146
ModBaseiSearch...

Protein-protein interaction databases

BioGRIDi280044, 25 interactors
IntActiQ10146, 2 interactors
MINTiQ10146
STRINGi4896.SPAC1F3.01.1

PTM databases

iPTMnetiQ10146
SwissPalmiQ10146

Proteomic databases

MaxQBiQ10146
PaxDbiQ10146
PRIDEiQ10146

Genome annotation databases

EnsemblFungiiSPAC1F3.01.1; SPAC1F3.01.1:pep; SPAC1F3.01
GeneIDi2543630
KEGGispo:SPAC1F3.01

Organism-specific databases

PomBaseiSPAC1F3.01, rrp6
VEuPathDBiFungiDB:SPAC1F3.01

Phylogenomic databases

eggNOGiKOG2206, Eukaryota
HOGENOMiCLU_010129_0_1_1
InParanoidiQ10146
OMAiWRDHTAR
PhylomeDBiQ10146

Enzyme and pathway databases

ReactomeiR-SPO-6791226, Major pathway of rRNA processing in the nucleolus and cytosol

Miscellaneous databases

Protein Ontology

More...
PROi
PR:Q10146

Family and domain databases

InterProiView protein in InterPro
IPR002562, 3'-5'_exonuclease_dom
IPR012588, Exosome-assoc_fac_Rrp6_N
IPR010997, HRDC-like_sf
IPR002121, HRDC_dom
IPR012337, RNaseH-like_sf
PfamiView protein in Pfam
PF01612, DNA_pol_A_exo1, 1 hit
PF00570, HRDC, 1 hit
PF08066, PMC2NT, 1 hit
SMARTiView protein in SMART
SM00474, 35EXOc, 1 hit
SM00341, HRDC, 1 hit
SUPFAMiSSF47819, SSF47819, 1 hit
SSF53098, SSF53098, 1 hit
PROSITEiView protein in PROSITE
PS50967, HRDC, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<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 subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiRRP6_SCHPO
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: Q10146
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: May 30, 2000
Last modified: February 10, 2021
This is version 131 of the entry and version 2 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

<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

Reference proteome

Documents

  1. Schizosaccharomyces pombe
    Schizosaccharomyces pombe: entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families
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