Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Exosome complex component Rrp4

Gene

rrp4

Organism
Aeropyrum pernix (strain ATCC 700893 / DSM 11879 / JCM 9820 / NBRC 100138 / K1)
Status
Reviewed-Annotation score: Annotation score: 2 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 annotation

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:APE_1448
OrganismiAeropyrum pernix (strain ATCC 700893 / DSM 11879 / JCM 9820 / NBRC 100138 / K1)
Taxonomic identifieri272557 [NCBI]
Taxonomic lineageiArchaeaCrenarchaeotaThermoproteiDesulfurococcalesDesulfurococcaceaeAeropyrum
Proteomesi
  • UP000002518 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_00000501441 – 235Exosome complex component Rrp4Add BLAST235

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 annotation

Protein-protein interaction databases

STRINGi272557.APE_1448.

Structurei

Secondary structure

1235
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi70 – 77Combined sources8
Beta strandi79 – 85Combined sources7
Beta strandi87 – 90Combined sources4
Beta strandi92 – 95Combined sources4
Helixi96 – 100Combined sources5
Turni106 – 109Combined sources4
Beta strandi120 – 128Combined sources9
Beta strandi134 – 137Combined sources4
Beta strandi140 – 142Combined sources3
Beta strandi148 – 153Combined sources6
Helixi156 – 158Combined sources3
Helixi160 – 162Combined sources3
Helixi165 – 167Combined sources3
Helixi168 – 177Combined sources10
Beta strandi180 – 184Combined sources5
Turni185 – 187Combined sources3
Beta strandi188 – 192Combined sources5
Helixi196 – 211Combined sources16
Helixi219 – 232Combined sources14

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2Z0SX-ray3.20A1-235[»]
ProteinModelPortaliQ9YC02.
SMRiQ9YC02.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9YC02.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini67 – 139S1 motifUniRule annotationAdd BLAST73
Domaini149 – 205KHUniRule annotationAdd BLAST57

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.
KOiK03679.
OMAiPYDGLLH.

Family and domain databases

Gene3Di3.30.1370.10. 1 hit.
HAMAPiMF_00623. Exosome_Rrp4. 1 hit.
InterProiIPR026699. Exosome_RNA_bind1/RRP40/RRP4.
IPR004087. KH_dom.
IPR004088. KH_dom_type_1.
IPR012340. NA-bd_OB-fold.
IPR023474. Rrp4.
IPR022967. S1_dom.
IPR003029. S1_domain.
[Graphical view]
PANTHERiPTHR21321. PTHR21321. 1 hit.
PfamiPF00013. KH_1. 1 hit.
[Graphical view]
SMARTiSM00322. KH. 1 hit.
SM00316. S1. 1 hit.
[Graphical view]
SUPFAMiSSF50249. SSF50249. 1 hit.
SSF54791. SSF54791. 1 hit.
PROSITEiPS50126. S1. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9YC02-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSSERQLAGR IVVPGEPLPE EVEASPPYVI DYKGVKRATV VGLLREKGDG
60 70 80 90 100
GGRAFVKLKE IYVPQAGDVV IGLIQSVGIM NWFVDINSPY VAVLSVQDFL
110 120 130 140 150
GRPFNPAVDD MQSLLKVGDY IKAKVVAFDK TRSPLLTVQG EGLGRIVRGK
160 170 180 190 200
IVEISPAKVP RVIGRKMSML KTLEEKTECK IFVARNGRIH LECPNEDLEA
210 220 230
IAVMAIKIID EEAYTSGLTK RIIKFIEEER RIREV
Length:235
Mass (Da):26,061
Last modified:November 1, 1999 - v1
Checksum:i70A79A5EB0BF8CE7
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000002 Genomic DNA. Translation: BAA80446.1.
PIRiH72623.

Genome annotation databases

EnsemblBacteriaiBAA80446; BAA80446; APE_1448.
KEGGiape:APE_1448.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000002 Genomic DNA. Translation: BAA80446.1.
PIRiH72623.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2Z0SX-ray3.20A1-235[»]
ProteinModelPortaliQ9YC02.
SMRiQ9YC02.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi272557.APE_1448.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAA80446; BAA80446; APE_1448.
KEGGiape:APE_1448.

Phylogenomic databases

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

Miscellaneous databases

EvolutionaryTraceiQ9YC02.

Family and domain databases

Gene3Di3.30.1370.10. 1 hit.
HAMAPiMF_00623. Exosome_Rrp4. 1 hit.
InterProiIPR026699. Exosome_RNA_bind1/RRP40/RRP4.
IPR004087. KH_dom.
IPR004088. KH_dom_type_1.
IPR012340. NA-bd_OB-fold.
IPR023474. Rrp4.
IPR022967. S1_dom.
IPR003029. S1_domain.
[Graphical view]
PANTHERiPTHR21321. PTHR21321. 1 hit.
PfamiPF00013. KH_1. 1 hit.
[Graphical view]
SMARTiSM00322. KH. 1 hit.
SM00316. S1. 1 hit.
[Graphical view]
SUPFAMiSSF50249. SSF50249. 1 hit.
SSF54791. SSF54791. 1 hit.
PROSITEiPS50126. S1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRRP4_AERPE
AccessioniPrimary (citable) accession number: Q9YC02
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 25, 2003
Last sequence update: November 1, 1999
Last modified: November 2, 2016
This is version 96 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.