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Protein

Exosome complex component Rrp41

Gene

rrp41

Organism
Pyrococcus abyssi (strain GE5 / Orsay)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Catalytic component of the exosome, which is a complex involved in RNA degradation. Has 3'->5' exoribonuclease activity. Can also synthesize heteropolymeric RNA-tails (Probable).1 Publication

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Exonuclease, Hydrolase, Nuclease

Names & Taxonomyi

Protein namesi
Recommended name:
Exosome complex component Rrp41UniRule annotation (EC:3.1.13.-UniRule annotation)
Gene namesi
Name:rrp41UniRule annotation
Ordered Locus Names:PYRAB06100
ORF Names:PAB0420
OrganismiPyrococcus abyssi (strain GE5 / Orsay)
Taxonomic identifieri272844 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
Proteomesi
  • UP000000810 Componenti: Chromosome
  • UP000009139 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Exosome

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi89R → E: Does not affect ring assembly, but abolishes RNA degradation; when associated with E-91. 1 Publication1
Mutagenesisi91K → E: Does not affect ring assembly, but abolishes RNA degradation; when associated with E-89. 1 Publication1
Mutagenesisi137R → A: Decrease in activity. 1 Publication1
Mutagenesisi186D → A: Abolishes RNA degradation. 1 Publication1
Mutagenesisi204D → A: Decrease in activity. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001399851 – 249Exosome complex component Rrp41Add BLAST249

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.UniRule annotation

Protein-protein interaction databases

STRINGi272844.PAB0420.

Structurei

Secondary structure

1249
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi11 – 13Combined sources3
Beta strandi29 – 33Combined sources5
Beta strandi37 – 47Combined sources11
Beta strandi50 – 61Combined sources12
Helixi65 – 67Combined sources3
Beta strandi70 – 72Combined sources3
Beta strandi74 – 81Combined sources8
Helixi83 – 85Combined sources3
Beta strandi86 – 88Combined sources3
Helixi96 – 109Combined sources14
Helixi110 – 112Combined sources3
Helixi115 – 117Combined sources3
Beta strandi121 – 131Combined sources11
Helixi136 – 150Combined sources15
Beta strandi155 – 157Combined sources3
Beta strandi160 – 167Combined sources8
Beta strandi170 – 174Combined sources5
Helixi177 – 181Combined sources5
Beta strandi184 – 192Combined sources9
Turni193 – 196Combined sources4
Beta strandi197 – 201Combined sources5
Helixi209 – 241Combined sources33

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2PNZX-ray2.14A1-249[»]
2PO0X-ray2.30A1-249[»]
2PO1X-ray1.94A1-249[»]
2PO2X-ray2.41A1-249[»]
ProteinModelPortaliQ9V119.
SMRiQ9V119.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9V119.

Family & Domainsi

Sequence similaritiesi

Belongs to the RNase PH family. Rrp41 subfamily.UniRule annotation

Phylogenomic databases

eggNOGiarCOG01575. Archaea.
COG0689. LUCA.
HOGENOMiHOG000229515.
KOiK11600.
OMAiDITLLQM.

Family and domain databases

CDDicd11366. RNase_PH_archRRP41. 1 hit.
Gene3Di3.30.230.70. 1 hit.
HAMAPiMF_00591. Exosome_Rrp41. 1 hit.
InterProiIPR001247. ExoRNase_PH_dom1.
IPR015847. ExoRNase_PH_dom2.
IPR027408. PNPase/RNase_PH_dom.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR011807. Rrp41.
[Graphical view]
PfamiPF01138. RNase_PH. 1 hit.
PF03725. RNase_PH_C. 1 hit.
[Graphical view]
SUPFAMiSSF54211. SSF54211. 1 hit.
SSF55666. SSF55666. 1 hit.
TIGRFAMsiTIGR02065. ECX1. 1 hit.

Sequencei

Sequence statusi: Complete.

Q9V119-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MMEKPEGLKL IDENGRRIDG RKKYELRPIK MEVGVLKNAN GSAYIEWGKN
60 70 80 90 100
KIIAAVYGPR ELHPKHLQRP DRAILRVRYN MAPFSVEERK KPGPDRRSIE
110 120 130 140 150
ISKVIKGALE PALILEMFPR TAIDVFIEVL QADAGTRVAG ITAASLALAD
160 170 180 190 200
AGIPMRDLVA ACAAGKIEGE IVLDLNKEED NYGEADVPVA IMPLKNDITL
210 220 230 240
LQMDGYLTKD EFIEAVKLAI KGAKAVYQKQ REALKEKYLK IAQEVEGSE
Length:249
Mass (Da):27,678
Last modified:May 1, 2000 - v1
Checksum:iACB0748E1BF074A6
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ248284 Genomic DNA. Translation: CAB49532.1.
HE613800 Genomic DNA. Translation: CCE70002.1.
PIRiE75181.
RefSeqiWP_010867734.1. NC_000868.1.

Genome annotation databases

EnsemblBacteriaiCAB49532; CAB49532; PAB0420.
GeneIDi1495515.
KEGGipab:PAB0420.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ248284 Genomic DNA. Translation: CAB49532.1.
HE613800 Genomic DNA. Translation: CCE70002.1.
PIRiE75181.
RefSeqiWP_010867734.1. NC_000868.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2PNZX-ray2.14A1-249[»]
2PO0X-ray2.30A1-249[»]
2PO1X-ray1.94A1-249[»]
2PO2X-ray2.41A1-249[»]
ProteinModelPortaliQ9V119.
SMRiQ9V119.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi272844.PAB0420.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAB49532; CAB49532; PAB0420.
GeneIDi1495515.
KEGGipab:PAB0420.

Phylogenomic databases

eggNOGiarCOG01575. Archaea.
COG0689. LUCA.
HOGENOMiHOG000229515.
KOiK11600.
OMAiDITLLQM.

Miscellaneous databases

EvolutionaryTraceiQ9V119.

Family and domain databases

CDDicd11366. RNase_PH_archRRP41. 1 hit.
Gene3Di3.30.230.70. 1 hit.
HAMAPiMF_00591. Exosome_Rrp41. 1 hit.
InterProiIPR001247. ExoRNase_PH_dom1.
IPR015847. ExoRNase_PH_dom2.
IPR027408. PNPase/RNase_PH_dom.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR011807. Rrp41.
[Graphical view]
PfamiPF01138. RNase_PH. 1 hit.
PF03725. RNase_PH_C. 1 hit.
[Graphical view]
SUPFAMiSSF54211. SSF54211. 1 hit.
SSF55666. SSF55666. 1 hit.
TIGRFAMsiTIGR02065. ECX1. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiRRP41_PYRAB
AccessioniPrimary (citable) accession number: Q9V119
Secondary accession number(s): G8ZJ75
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 25, 2003
Last sequence update: May 1, 2000
Last modified: November 30, 2016
This is version 94 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

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.