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Q9UXC0

- RRP42_SULSO

UniProt

Q9UXC0 - RRP42_SULSO

Protein

Exosome complex component Rrp42

Gene

rrp42

Organism
Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 80 (01 Oct 2014)
      Sequence version 1 (01 May 2000)
      Previous versions | rss
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    Functioni

    Non-catalytic component of the exosome, which is a complex involved in RNA degradation. Contributes to the structuring of the Rrp41 active site.2 PublicationsUniRule annotation

    GO - Molecular functioni

    1. 3'-5' exonuclease activity Source: InterPro

    GO - Biological processi

    1. RNA catabolic process Source: UniProtKB-HAMAP

    Enzyme and pathway databases

    BioCyciSSOL273057:GCH2-695-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Exosome complex component Rrp42UniRule annotation
    Gene namesi
    Name:rrp42UniRule annotation
    Ordered Locus Names:SSO0732
    ORF Names:C20_023
    OrganismiSulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)
    Taxonomic identifieri273057 [NCBI]
    Taxonomic lineageiArchaeaCrenarchaeotaThermoproteiSulfolobalesSulfolobaceaeSulfolobus
    ProteomesiUP000001974: Chromosome

    Subcellular locationi

    Cytoplasm UniRule annotation

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB-SubCell
    2. exosome (RNase complex) Source: UniProtKB-KW

    Keywords - Cellular componenti

    Cytoplasm, Exosome

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi112 – 1121R → E: Abolishes exoribonuclease activity of the complex; when associated with E-116. 1 Publication
    Mutagenesisi116 – 1161R → E: Abolishes exoribonuclease activity of the complex; when associated with E-112. 1 Publication
    Mutagenesisi218 – 2181E → A: Does not change activity. 1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 275275Exosome complex component Rrp42PRO_0000140006Add
    BLAST

    Interactioni

    Subunit structurei

    Component of the archaeal exosome complex. Forms a hexameric ring-like arrangement composed of 3 Rrp41-Rrp42 heterodimers. The hexameric ring associates with a trimer of Rrp4 and/or Csl4 subunits.6 PublicationsUniRule annotation

    Protein-protein interaction databases

    DIPiDIP-60492N.
    STRINGi273057.SSO0732.

    Structurei

    Secondary structure

    1
    275
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi13 – 197
    Turni20 – 223
    Helixi23 – 253
    Beta strandi29 – 313
    Beta strandi40 – 445
    Beta strandi50 – 589
    Beta strandi61 – 7212
    Beta strandi76 – 783
    Beta strandi79 – 813
    Beta strandi83 – 908
    Turni92 – 943
    Beta strandi100 – 1023
    Helixi105 – 12016
    Helixi126 – 1294
    Beta strandi130 – 1323
    Turni133 – 1353
    Beta strandi136 – 14813
    Helixi153 – 16614
    Beta strandi169 – 1746
    Beta strandi181 – 19010
    Beta strandi193 – 1953
    Beta strandi198 – 2058
    Beta strandi208 – 2125
    Helixi215 – 2206
    Beta strandi222 – 2298
    Turni231 – 2333
    Beta strandi235 – 24410
    Helixi248 – 27326

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    2BR2X-ray2.80A/C/E/G/I/K/M/O/Q/S/U/W1-275[»]
    2C37X-ray2.80A/C/E/G/I/K/M/O/Q/S/U/W1-275[»]
    2C38X-ray3.10A/C/E/G/I/K/M/O/Q/S/U/W1-275[»]
    2C39X-ray3.30A/C/E/G/I/K/M/O/Q/S/U/W1-275[»]
    2JE6X-ray1.60A1-275[»]
    2JEAX-ray2.33A1-275[»]
    2JEBX-ray2.40A1-275[»]
    3L7ZX-ray2.41A/D/G1-275[»]
    4BA1X-ray1.80A1-275[»]
    4BA2X-ray2.50A1-275[»]
    ProteinModelPortaliQ9UXC0.
    SMRiQ9UXC0. Positions 1-275.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ9UXC0.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the RNase PH family. Rrp42 subfamily.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG2123.
    HOGENOMiHOG000229504.
    KOiK12589.
    OMAiFIDIWAL.

    Family and domain databases

    Gene3Di3.30.230.70. 1 hit.
    HAMAPiMF_00622. Exosome_Rrp42.
    InterProiIPR001247. ExoRNase_PH_dom1.
    IPR015847. ExoRNase_PH_dom2.
    IPR020869. Exosome_complex_exonuc_2_prob.
    IPR027408. PNPase/RNase_PH_dom.
    IPR020568. Ribosomal_S5_D2-typ_fold.
    [Graphical view]
    PfamiPF01138. RNase_PH. 1 hit.
    PF03725. RNase_PH_C. 1 hit.
    [Graphical view]
    SUPFAMiSSF54211. SSF54211. 2 hits.
    SSF55666. SSF55666. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    Q9UXC0-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSSTPSNQNI IPIIKKESIV SLFEKGIRQD GRKLTDYRPL SITLDYAKKA    50
    DGSALVKLGT TMVLAGTKLE IDKPYEDTPN QGNLIVNVEL LPLAYETFEP 100
    GPPDENAIEL ARVVDRSLRD SKALDLTKLV IEPGKSVWTV WLDVYVLDYG 150
    GNVLDACTLA SVAALYNTKV YKVEQHSNGI SVNKNEVVGK LPLNYPVVTI 200
    SVAKVDKYLV VDPDLDEESI MDAKISFSYT PDLKIVGIQK SGKGSMSLQD 250
    IDQAENTARS TAVKLLEELK KHLGI 275
    Length:275
    Mass (Da):30,194
    Last modified:May 1, 2000 - v1
    Checksum:i4188C9D6928A144C
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Y18930 Genomic DNA. Translation: CAB57571.1.
    AE006641 Genomic DNA. Translation: AAK41030.1.
    PIRiG90221.
    RefSeqiNP_342240.1. NC_002754.1.
    WP_009991305.1. NC_002754.1.

    Genome annotation databases

    EnsemblBacteriaiAAK41030; AAK41030; SSO0732.
    GeneIDi1454997.
    KEGGisso:SSO0732.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Y18930 Genomic DNA. Translation: CAB57571.1 .
    AE006641 Genomic DNA. Translation: AAK41030.1 .
    PIRi G90221.
    RefSeqi NP_342240.1. NC_002754.1.
    WP_009991305.1. NC_002754.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    2BR2 X-ray 2.80 A/C/E/G/I/K/M/O/Q/S/U/W 1-275 [» ]
    2C37 X-ray 2.80 A/C/E/G/I/K/M/O/Q/S/U/W 1-275 [» ]
    2C38 X-ray 3.10 A/C/E/G/I/K/M/O/Q/S/U/W 1-275 [» ]
    2C39 X-ray 3.30 A/C/E/G/I/K/M/O/Q/S/U/W 1-275 [» ]
    2JE6 X-ray 1.60 A 1-275 [» ]
    2JEA X-ray 2.33 A 1-275 [» ]
    2JEB X-ray 2.40 A 1-275 [» ]
    3L7Z X-ray 2.41 A/D/G 1-275 [» ]
    4BA1 X-ray 1.80 A 1-275 [» ]
    4BA2 X-ray 2.50 A 1-275 [» ]
    ProteinModelPortali Q9UXC0.
    SMRi Q9UXC0. Positions 1-275.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    DIPi DIP-60492N.
    STRINGi 273057.SSO0732.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAK41030 ; AAK41030 ; SSO0732 .
    GeneIDi 1454997.
    KEGGi sso:SSO0732.

    Phylogenomic databases

    eggNOGi COG2123.
    HOGENOMi HOG000229504.
    KOi K12589.
    OMAi FIDIWAL.

    Enzyme and pathway databases

    BioCyci SSOL273057:GCH2-695-MONOMER.

    Miscellaneous databases

    EvolutionaryTracei Q9UXC0.

    Family and domain databases

    Gene3Di 3.30.230.70. 1 hit.
    HAMAPi MF_00622. Exosome_Rrp42.
    InterProi IPR001247. ExoRNase_PH_dom1.
    IPR015847. ExoRNase_PH_dom2.
    IPR020869. Exosome_complex_exonuc_2_prob.
    IPR027408. PNPase/RNase_PH_dom.
    IPR020568. Ribosomal_S5_D2-typ_fold.
    [Graphical view ]
    Pfami PF01138. RNase_PH. 1 hit.
    PF03725. RNase_PH_C. 1 hit.
    [Graphical view ]
    SUPFAMi SSF54211. SSF54211. 2 hits.
    SSF55666. SSF55666. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 35092 / DSM 1617 / JCM 11322 / P2.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 35092 / DSM 1617 / JCM 11322 / P2.
    3. Cited for: INTERACTION WITH EXOSOME.
      Strain: ATCC 35092 / DSM 1617 / JCM 11322 / P2.
    4. "Characterization of native and reconstituted exosome complexes from the hyperthermophilic archaeon Sulfolobus solfataricus."
      Walter P., Klein F., Lorentzen E., Ilchmann A., Klug G., Evguenieva-Hackenberg E.
      Mol. Microbiol. 62:1076-1089(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: INTERACTION WITH EXOSOME.
    5. "The evolutionarily conserved subunits Rrp4 and Csl4 confer different substrate specificities to the archaeal exosome."
      Roppelt V., Klug G., Evguenieva-Hackenberg E.
      FEBS Lett. 584:2931-2936(2010) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, SUBUNIT.
    6. "Heterogeneous complexes of the RNA exosome in Sulfolobus solfataricus."
      Witharana C., Roppelt V., Lochnit G., Klug G., Evguenieva-Hackenberg E.
      Biochimie 94:1578-1587(2012) [PubMed] [Europe PMC] [Abstract]
      Cited for: INTERACTION WITH EXOSOME.
      Strain: ATCC 35092 / DSM 1617 / JCM 11322 / P2.
    7. "Structural basis of 3' end RNA recognition and exoribonucleolytic cleavage by an exosome RNase PH core."
      Lorentzen E., Conti E.
      Mol. Cell 20:473-481(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.80 ANGSTROMS) IN COMPLEX WITH RRP41, SUBUNIT, MUTAGENESIS OF ARG-112 AND ARG-116.
    8. "The archaeal exosome core is a hexameric ring structure with three catalytic subunits."
      Lorentzen E., Walter P., Fribourg S., Evguenieva-Hackenberg E., Klug G., Conti E.
      Nat. Struct. Mol. Biol. 12:575-581(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.80 ANGSTROMS) IN COMPLEX WITH RRP41, FUNCTION, SUBUNIT, MUTAGENESIS OF GLU-218.
    9. Cited for: X-RAY CRYSTALLOGRAPHY (1.60 ANGSTROMS) IN COMPLEX WITH RRP41 AND RRP4, SUBUNIT.
    10. "Crystal structure of the S. solfataricus archaeal exosome reveals conformational flexibility in the RNA-binding ring."
      Lu C., Ding F., Ke A.
      PLoS ONE 5:E8739-E8739(2010) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.41 ANGSTROMS) IN COMPLEX WITH RRP41 AND RRP4.
    11. "Crystal structure of a 9-subunit archaeal exosome in pre-catalytic states of the phosphorolytic reaction."
      Lorentzen E., Conti E.
      Archaea 2012:721869-721869(2012) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.80 ANGSTROMS) IN COMPLEX WITH RRP41 AND RRP4, SUBUNIT.

    Entry informationi

    Entry nameiRRP42_SULSO
    AccessioniPrimary (citable) accession number: Q9UXC0
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 25, 2003
    Last sequence update: May 1, 2000
    Last modified: October 1, 2014
    This is version 80 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3