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Q9UXC0 (RRP42_SULSO) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 78. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Exosome complex component Rrp42
Gene names
Name:rrp42
Ordered Locus Names:SSO0732
ORF Names:C20_023
OrganismSulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2) [Reference proteome] [HAMAP]
Taxonomic identifier273057 [NCBI]
Taxonomic lineageArchaeaCrenarchaeotaThermoproteiSulfolobalesSulfolobaceaeSulfolobus

Protein attributes

Sequence length275 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Non-catalytic component of the exosome, which is a complex involved in RNA degradation. Contributes to the structuring of the Rrp41 active site. Ref.5 Ref.8

Subunit structure

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. Ref.5 Ref.7 Ref.8 Ref.9 Ref.11

Subcellular location

Cytoplasm Potential HAMAP-Rule MF_00622.

Sequence similarities

Belongs to the RNase PH family. Rrp42 subfamily.

Ontologies

Keywords
   Cellular componentCytoplasm
Exosome
   Technical term3D-structure
Complete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processRNA catabolic process

Inferred from electronic annotation. Source: UniProtKB-HAMAP

   Cellular_componentcytoplasm

Inferred from electronic annotation. Source: UniProtKB-SubCell

exosome (RNase complex)

Inferred from electronic annotation. Source: UniProtKB-KW

   Molecular_function3'-5' exonuclease activity

Inferred from electronic annotation. Source: InterPro

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 275275Exosome complex component Rrp42 HAMAP-Rule MF_00622
PRO_0000140006

Experimental info

Mutagenesis1121R → E: Abolishes exoribonuclease activity of the complex; when associated with E-116. Ref.7
Mutagenesis1161R → E: Abolishes exoribonuclease activity of the complex; when associated with E-112. Ref.7
Mutagenesis2181E → A: Does not change activity. Ref.8

Secondary structure

................................................... 275
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
Q9UXC0 [UniParc].

Last modified May 1, 2000. Version 1.
Checksum: 4188C9D6928A144C

FASTA27530,194
        10         20         30         40         50         60 
MSSTPSNQNI IPIIKKESIV SLFEKGIRQD GRKLTDYRPL SITLDYAKKA DGSALVKLGT 

        70         80         90        100        110        120 
TMVLAGTKLE IDKPYEDTPN QGNLIVNVEL LPLAYETFEP GPPDENAIEL ARVVDRSLRD 

       130        140        150        160        170        180 
SKALDLTKLV IEPGKSVWTV WLDVYVLDYG GNVLDACTLA SVAALYNTKV YKVEQHSNGI 

       190        200        210        220        230        240 
SVNKNEVVGK LPLNYPVVTI SVAKVDKYLV VDPDLDEESI MDAKISFSYT PDLKIVGIQK 

       250        260        270 
SGKGSMSLQD IDQAENTARS TAVKLLEELK KHLGI 

« Hide

References

« Hide 'large scale' references
[1]"Gene content and organization of a 281-kbp contig from the genome of the extremely thermophilic archaeon, Sulfolobus solfataricus P2."
Charlebois R.L., Singh R.K., Chan-Weiher C.C.-Y., Allard G., Chow C., Confalonieri F., Curtis B., Duguet M., Erauso G., Faguy D., Gaasterland T., Garrett R.A., Gordon P., Jeffries A.C., Kozera C., Kushwaha N., Lafleur E., Medina N. expand/collapse author list , Peng X., Penny S.L., She Q., St Jean A., van der Oost J., Young F., Zivanovic Y., Doolittle W.F., Ragan M.A., Sensen C.W.
Genome 43:116-136(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 35092 / DSM 1617 / JCM 11322 / P2.
[2]"The complete genome of the crenarchaeon Sulfolobus solfataricus P2."
She Q., Singh R.K., Confalonieri F., Zivanovic Y., Allard G., Awayez M.J., Chan-Weiher C.C.-Y., Clausen I.G., Curtis B.A., De Moors A., Erauso G., Fletcher C., Gordon P.M.K., Heikamp-de Jong I., Jeffries A.C., Kozera C.J., Medina N., Peng X. expand/collapse author list , Thi-Ngoc H.P., Redder P., Schenk M.E., Theriault C., Tolstrup N., Charlebois R.L., Doolittle W.F., Duguet M., Gaasterland T., Garrett R.A., Ragan M.A., Sensen C.W., Van der Oost J.
Proc. Natl. Acad. Sci. U.S.A. 98:7835-7840(2001) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 35092 / DSM 1617 / JCM 11322 / P2.
[3]"An exosome-like complex in Sulfolobus solfataricus."
Evguenieva-Hackenberg E., Walter P., Hochleitner E., Lottspeich F., Klug G.
EMBO Rep. 4:889-893(2003) [PubMed] [Europe PMC] [Abstract]
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]"RNA channelling by the archaeal exosome."
Lorentzen E., Dziembowski A., Lindner D., Seraphin B., Conti E.
EMBO Rep. 8:470-476(2007) [PubMed] [Europe PMC] [Abstract]
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.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
Y18930 Genomic DNA. Translation: CAB57571.1.
AE006641 Genomic DNA. Translation: AAK41030.1.
PIRG90221.
RefSeqNP_342240.1. NC_002754.1.

3D structure databases

PDBe
RCSB-PDB
PDBj
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[»]
ProteinModelPortalQ9UXC0.
SMRQ9UXC0. Positions 1-275.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

DIPDIP-60492N.
STRING273057.SSO0732.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAAK41030; AAK41030; SSO0732.
GeneID1454997.
KEGGsso:SSO0732.

Phylogenomic databases

eggNOGCOG2123.
HOGENOMHOG000229504.
KOK12589.
OMAFIDIWAL.

Enzyme and pathway databases

BioCycSSOL273057:GCH2-695-MONOMER.

Family and domain databases

Gene3D3.30.230.70. 1 hit.
HAMAPMF_00622. Exosome_Rrp42.
InterProIPR001247. 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]
PfamPF01138. RNase_PH. 1 hit.
PF03725. RNase_PH_C. 1 hit.
[Graphical view]
SUPFAMSSF54211. SSF54211. 2 hits.
SSF55666. SSF55666. 1 hit.
ProtoNetSearch...

Other

EvolutionaryTraceQ9UXC0.

Entry information

Entry nameRRP42_SULSO
AccessionPrimary (citable) accession number: Q9UXC0
Entry history
Integrated into UniProtKB/Swiss-Prot: March 25, 2003
Last sequence update: May 1, 2000
Last modified: July 9, 2014
This is version 78 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references