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Protein

Exosome complex component Rrp4

Gene

rrp4

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

Keywordsi

Molecular functionRNA-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

Keywords - Cellular componenti

Cytoplasm, Exosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000501441 – 235Exosome complex component Rrp4Add BLAST235

Proteomic databases

PRIDEiQ9YC02

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

Phylogenomic databases

eggNOGiarCOG00678 Archaea
COG1097 LUCA
HOGENOMiHOG000229527
KOiK03679
OMAiGPYIPEV
OrthoDBiPOG093Z0A2Y

Family and domain databases

Gene3Di3.30.1370.10, 1 hit
HAMAPiMF_00623 Exosome_Rrp4, 1 hit
InterProiView protein in InterPro
IPR026699 Exosome_RNA_bind1/RRP40/RRP4
IPR004087 KH_dom
IPR004088 KH_dom_type_1
IPR036612 KH_dom_type_1_sf
IPR012340 NA-bd_OB-fold
IPR023474 Rrp4
IPR022967 S1_dom
IPR003029 S1_domain
PANTHERiPTHR21321 PTHR21321, 1 hit
PfamiView protein in Pfam
PF15985 KH_6, 1 hit
SMARTiView protein in SMART
SM00322 KH, 1 hit
SM00316 S1, 1 hit
SUPFAMiSSF50249 SSF50249, 1 hit
SSF54791 SSF54791, 1 hit
PROSITEiView protein in PROSITE
PS50126 S1, 1 hit

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

Similar proteinsi

Entry informationi

Entry nameiRRP4_AERPE
AccessioniPrimary (citable) accession number: Q9YC02
Entry historyiIntegrated into UniProtKB/Swiss-Prot: March 25, 2003
Last sequence update: November 1, 1999
Last modified: May 23, 2018
This is version 100 of the entry and version 1 of the sequence. See 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

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