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Protein

Exosome complex component Rrp4

Gene

rrp4

Organism
Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Non-catalytic component of the exosome, which is a complex involved in RNA degradation. Increases the RNA binding and the efficiency of RNA degradation. Confers strong poly(A) specificity to the exosome.UniRule annotation3 Publications

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Ligandi

RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Exosome complex component Rrp4UniRule annotation
Gene namesi
Name:rrp4UniRule annotation
Ordered Locus Names:SSO0736
ORF Names:C20_026
OrganismiSulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)
Taxonomic identifieri273057 [NCBI]
Taxonomic lineageiArchaeaCrenarchaeotaThermoproteiSulfolobalesSulfolobaceaeSulfolobus
Proteomesi
  • UP000001974 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Exosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000501561 – 249Exosome complex component Rrp4Add BLAST249

Interactioni

Subunit structurei

Component of the archaeal exosome complex. Forms a trimer of Rrp4 and/or Csl4 subunits. The trimer associates with a hexameric ring-like arrangement composed of 3 Rrp41-Rrp42 heterodimers.UniRule annotation4 Publications

Protein-protein interaction databases

STRINGi273057.SSO0736.

Structurei

Secondary structure

1249
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi8 – 10Combined sources3
Beta strandi15 – 17Combined sources3
Beta strandi22 – 26Combined sources5
Beta strandi36 – 39Combined sources4
Beta strandi42 – 45Combined sources4
Beta strandi47 – 54Combined sources8
Beta strandi57 – 63Combined sources7
Beta strandi75 – 83Combined sources9
Beta strandi85 – 91Combined sources7
Beta strandi93 – 96Combined sources4
Beta strandi98 – 101Combined sources4
Helixi102 – 106Combined sources5
Beta strandi117 – 119Combined sources3
Beta strandi125 – 134Combined sources10
Beta strandi137 – 142Combined sources6
Beta strandi156 – 158Combined sources3
Helixi161 – 163Combined sources3
Helixi164 – 168Combined sources5
Helixi170 – 172Combined sources3
Helixi173 – 179Combined sources7
Beta strandi187 – 189Combined sources3
Beta strandi192 – 195Combined sources4
Turni201 – 206Combined sources6
Helixi208 – 211Combined sources4
Turni212 – 219Combined sources8
Turni224 – 227Combined sources4
Helixi232 – 235Combined sources4
Turni236 – 238Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2JE6X-ray1.60I1-249[»]
2JEAX-ray2.33I1-249[»]
2JEBX-ray2.40I1-249[»]
3L7ZX-ray2.41C/F/I1-249[»]
4BA1X-ray1.80I1-249[»]
4BA2X-ray2.50I1-249[»]
ProteinModelPortaliQ9UXC4.
SMRiQ9UXC4.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9UXC4.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini73 – 144S1 motifUniRule annotationAdd BLAST72
Domaini154 – 211KHUniRule annotationAdd BLAST58

Domaini

Contains an N-terminal domain that mediates interactions with the hexameric ring, a central S1 domain and a C-terminal KH domain. The KH domain is required for efficient RNA degradation, but is not responsible for poly(A) preference.2 Publications

Sequence similaritiesi

Belongs to the RRP4 family.UniRule annotation
Contains 1 KH domain.UniRule annotation
Contains 1 S1 motif domain.UniRule annotation

Phylogenomic databases

eggNOGiarCOG00678. Archaea.
COG1097. LUCA.
HOGENOMiHOG000229527.
InParanoidiQ9UXC4.
KOiK03679.
OMAiPYDGLLH.

Family and domain databases

HAMAPiMF_00623. Exosome_Rrp4. 1 hit.
InterProiIPR026699. Exosome_RNA_bind1/RRP40/RRP4.
IPR004088. KH_dom_type_1.
IPR012340. NA-bd_OB-fold.
IPR023474. Rrp4.
IPR022967. S1_dom.
IPR003029. S1_domain.
[Graphical view]
PANTHERiPTHR21321. PTHR21321. 1 hit.
SMARTiSM00316. S1. 1 hit.
[Graphical view]
SUPFAMiSSF50249. SSF50249. 1 hit.
SSF54791. SSF54791. 1 hit.
PROSITEiPS50126. S1. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9UXC4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNMSQSQKIV LQPRSIVVPG ELLAEGEFQI PWSPYILKIN SKYYSTVVGL
60 70 80 90 100
FDVKDTQFEV IPLEGSFYYP KINDIVIGLV EDVEIYGWVV DIKAPYKAYL
110 120 130 140 150
PASNLLGRSI NVGEDLRRYL DVGDYVIARI ENFDRSIDPV LSVKGKDLGR
160 170 180 190 200
VSNGIVIDIM PVKVPRVIGK NKSMYETLTS KSGCSIFVAN NGRIWATCPS
210 220 230 240
RFSEEILIEA IRKIENESHI KGLTDRIKQF IEEKLGERNA SSGETKTNS
Length:249
Mass (Da):27,998
Last modified:May 1, 2000 - v1
Checksum:iA36AD0CA0363D4B8
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y18930 Genomic DNA. Translation: CAB57567.1.
AE006641 Genomic DNA. Translation: AAK41032.1.
PIRiA99222.

Genome annotation databases

EnsemblBacteriaiAAK41032; AAK41032; SSO0736.
KEGGisso:SSO0736.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y18930 Genomic DNA. Translation: CAB57567.1.
AE006641 Genomic DNA. Translation: AAK41032.1.
PIRiA99222.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2JE6X-ray1.60I1-249[»]
2JEAX-ray2.33I1-249[»]
2JEBX-ray2.40I1-249[»]
3L7ZX-ray2.41C/F/I1-249[»]
4BA1X-ray1.80I1-249[»]
4BA2X-ray2.50I1-249[»]
ProteinModelPortaliQ9UXC4.
SMRiQ9UXC4.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi273057.SSO0736.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAK41032; AAK41032; SSO0736.
KEGGisso:SSO0736.

Phylogenomic databases

eggNOGiarCOG00678. Archaea.
COG1097. LUCA.
HOGENOMiHOG000229527.
InParanoidiQ9UXC4.
KOiK03679.
OMAiPYDGLLH.

Miscellaneous databases

EvolutionaryTraceiQ9UXC4.

Family and domain databases

HAMAPiMF_00623. Exosome_Rrp4. 1 hit.
InterProiIPR026699. Exosome_RNA_bind1/RRP40/RRP4.
IPR004088. KH_dom_type_1.
IPR012340. NA-bd_OB-fold.
IPR023474. Rrp4.
IPR022967. S1_dom.
IPR003029. S1_domain.
[Graphical view]
PANTHERiPTHR21321. PTHR21321. 1 hit.
SMARTiSM00316. S1. 1 hit.
[Graphical view]
SUPFAMiSSF50249. SSF50249. 1 hit.
SSF54791. SSF54791. 1 hit.
PROSITEiPS50126. S1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRRP4_SULSO
AccessioniPrimary (citable) accession number: Q9UXC4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 25, 2003
Last sequence update: May 1, 2000
Last modified: November 2, 2016
This is version 99 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.