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Protein

Exosome complex component Rrp41

Gene

rrp41

Organism
Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
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:AF_0493
OrganismiArchaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
Taxonomic identifieri224325 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaArchaeoglobiArchaeoglobalesArchaeoglobaceaeArchaeoglobus
Proteomesi
  • UP000002199 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
Mutagenesisi65R → E: Reduces RNA degradation more than 90%. Abolishes RNA binding by the Rrp41-Rrp42 ring. 1 Publication1
Mutagenesisi180D → A: Abolishes exoribonuclease activity. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001399811 – 258Exosome complex component Rrp41Add BLAST258

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 annotation2 Publications

Protein-protein interaction databases

STRINGi224325.AF0493.

Structurei

Secondary structure

1258
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
Beta strandi63 – 65Combined sources3
Beta strandi70 – 72Combined sources3
Beta strandi74 – 81Combined sources8
Helixi83 – 85Combined sources3
Beta strandi86 – 88Combined sources3
Helixi96 – 110Combined sources15
Helixi115 – 117Combined sources3
Beta strandi121 – 131Combined sources11
Helixi136 – 150Combined sources15
Beta strandi155 – 167Combined sources13
Beta strandi170 – 174Combined sources5
Helixi177 – 182Combined sources6
Beta strandi183 – 194Combined sources12
Beta strandi197 – 210Combined sources14
Helixi212 – 249Combined sources38

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2BA0X-ray2.70D/E/F1-258[»]
2BA1X-ray2.70D/E/F1-258[»]
3M7NX-ray2.40D/E/F1-258[»]
3M85X-ray3.00D/E/F1-258[»]
ProteinModelPortaliO29757.
SMRiO29757.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO29757.

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiarCOG01575. Archaea.
COG0689. LUCA.
KOiK11600.
OMAiDPMKEED.

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.

O29757-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSEFNEKPEK LIVDGLRLDG RKFDELRPIK IEASVLKRAD GSCYLEMGKN
60 70 80 90 100
KVIAAVFGPR EVHPRHLQDP SKAIIRYRYN MAPFSVEERK RPGPDRRSIE
110 120 130 140 150
ISKVSKEAFE AVIMKELFPR SAIDIFVEVL QADAGSRTAC LNAASVALVD
160 170 180 190 200
AGVPMKGMIT SVAVGKADGQ LVLDPMKEED NFGEADMPFA FLIRNGKIES
210 220 230 240 250
IALLQMDGRM TRDEVKQAIE LAKKGALQIY EMQREAILRR YIEVGEEMDE

ITEGGEDA
Length:258
Mass (Da):28,847
Last modified:January 1, 1998 - v1
Checksum:i592BD6A3DB2128B3
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000782 Genomic DNA. Translation: AAB90744.1.
PIRiE69311.
RefSeqiWP_010878000.1. NC_000917.1.

Genome annotation databases

EnsemblBacteriaiAAB90744; AAB90744; AF_0493.
GeneIDi24794033.
KEGGiafu:AF_0493.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000782 Genomic DNA. Translation: AAB90744.1.
PIRiE69311.
RefSeqiWP_010878000.1. NC_000917.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2BA0X-ray2.70D/E/F1-258[»]
2BA1X-ray2.70D/E/F1-258[»]
3M7NX-ray2.40D/E/F1-258[»]
3M85X-ray3.00D/E/F1-258[»]
ProteinModelPortaliO29757.
SMRiO29757.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi224325.AF0493.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAB90744; AAB90744; AF_0493.
GeneIDi24794033.
KEGGiafu:AF_0493.

Phylogenomic databases

eggNOGiarCOG01575. Archaea.
COG0689. LUCA.
KOiK11600.
OMAiDPMKEED.

Miscellaneous databases

EvolutionaryTraceiO29757.

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_ARCFU
AccessioniPrimary (citable) accession number: O29757
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 25, 2003
Last sequence update: January 1, 1998
Last modified: November 2, 2016
This is version 97 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.