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Protein

Exosome complex component Rrp42

Gene

rrp42

Organism
Pyrococcus abyssi (strain GE5 / Orsay)
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. Contributes to the structuring of the Rrp41 active site.UniRule annotation

GO - Biological processi

Complete GO annotation...

Names & Taxonomyi

Protein namesi
Recommended name:
Exosome complex component Rrp42UniRule annotation
Gene namesi
Name:rrp42UniRule annotation
Ordered Locus Names:PYRAB06110
ORF Names:PAB0421
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
Mutagenesisi45K → A: Does not affect ring assembly, but decreases RNA degradation. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001400011 – 274Exosome complex component Rrp42Add BLAST274

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.PAB0421.

Structurei

Secondary structure

1274
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi10 – 20Combined sources11
Beta strandi36 – 40Combined sources5
Beta strandi46 – 54Combined sources9
Beta strandi57 – 68Combined sources12
Beta strandi79 – 86Combined sources8
Helixi88 – 90Combined sources3
Beta strandi96 – 98Combined sources3
Helixi101 – 115Combined sources15
Turni116 – 118Combined sources3
Helixi122 – 125Combined sources4
Beta strandi126 – 128Combined sources3
Turni129 – 131Combined sources3
Beta strandi132 – 144Combined sources13
Helixi149 – 163Combined sources15
Beta strandi165 – 171Combined sources7
Turni173 – 175Combined sources3
Beta strandi178 – 186Combined sources9
Beta strandi194 – 201Combined sources8
Beta strandi204 – 208Combined sources5
Helixi211 – 216Combined sources6
Beta strandi218 – 225Combined sources8
Beta strandi231 – 239Combined sources9
Helixi244 – 272Combined sources29

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2PNZX-ray2.14B1-274[»]
2PO0X-ray2.30B1-274[»]
2PO1X-ray1.94B1-274[»]
2PO2X-ray2.41B1-274[»]
ProteinModelPortaliQ9V118.
SMRiQ9V118.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9V118.

Family & Domainsi

Sequence similaritiesi

Belongs to the RNase PH family. Rrp42 subfamily.UniRule annotation

Phylogenomic databases

eggNOGiarCOG01574. Archaea.
COG2123. LUCA.
HOGENOMiHOG000229504.
KOiK12589.
OMAiMRDHIIN.

Family and domain databases

CDDicd11365. RNase_PH_archRRP42. 1 hit.
Gene3Di3.30.230.70. 1 hit.
HAMAPiMF_00622. Exosome_Rrp42. 1 hit.
InterProiIPR001247. ExoRNase_PH_dom1.
IPR015847. ExoRNase_PH_dom2.
IPR027408. PNPase/RNase_PH_dom.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR020869. Rrp42_archaea.
[Graphical view]
PfamiPF01138. RNase_PH. 1 hit.
PF03725. RNase_PH_C. 1 hit.
[Graphical view]
SUPFAMiSSF54211. SSF54211. 2 hits.
SSF55666. SSF55666. 1 hit.

Sequencei

Sequence statusi: Complete.

Q9V118-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSDNEIVAGI MRDHIINLLK EGKRIDDRGF EDYRPIEIEV GVIEKAEGSA
60 70 80 90 100
LVKLGSTQVL VGIKTSLGEP FPDTPNMGVM TTNVELVPLA SPTFEPGPPD
110 120 130 140 150
ERAIELARVI DRGIRESKAL NLEKMVIVPG KIVRVVFIDV HVLDHDGNLM
160 170 180 190 200
DAIGIAAIAA LLNARVPKVR YNEETGEVET LDETEPLPVE KIPVPVTFAK
210 220 230 240 250
IGNILVVDPS LDEELVMDGK ITITTDETGH ISAVQKSEGG AFKLEEVMYA
260 270
VETAFKKAEE IRKLILEAVE KAKQ
Length:274
Mass (Da):29,952
Last modified:May 1, 2000 - v1
Checksum:i01EFAA68DD57CAEF
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ248284 Genomic DNA. Translation: CAB49533.1.
HE613800 Genomic DNA. Translation: CCE70003.1.
PIRiF75181.
RefSeqiWP_010867735.1. NC_000868.1.

Genome annotation databases

EnsemblBacteriaiCAB49533; CAB49533; PAB0421.
GeneIDi1495516.
KEGGipab:PAB0421.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ248284 Genomic DNA. Translation: CAB49533.1.
HE613800 Genomic DNA. Translation: CCE70003.1.
PIRiF75181.
RefSeqiWP_010867735.1. NC_000868.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2PNZX-ray2.14B1-274[»]
2PO0X-ray2.30B1-274[»]
2PO1X-ray1.94B1-274[»]
2PO2X-ray2.41B1-274[»]
ProteinModelPortaliQ9V118.
SMRiQ9V118.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi272844.PAB0421.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAB49533; CAB49533; PAB0421.
GeneIDi1495516.
KEGGipab:PAB0421.

Phylogenomic databases

eggNOGiarCOG01574. Archaea.
COG2123. LUCA.
HOGENOMiHOG000229504.
KOiK12589.
OMAiMRDHIIN.

Miscellaneous databases

EvolutionaryTraceiQ9V118.

Family and domain databases

CDDicd11365. RNase_PH_archRRP42. 1 hit.
Gene3Di3.30.230.70. 1 hit.
HAMAPiMF_00622. Exosome_Rrp42. 1 hit.
InterProiIPR001247. ExoRNase_PH_dom1.
IPR015847. ExoRNase_PH_dom2.
IPR027408. PNPase/RNase_PH_dom.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR020869. Rrp42_archaea.
[Graphical view]
PfamiPF01138. RNase_PH. 1 hit.
PF03725. RNase_PH_C. 1 hit.
[Graphical view]
SUPFAMiSSF54211. SSF54211. 2 hits.
SSF55666. SSF55666. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiRRP42_PYRAB
AccessioniPrimary (citable) accession number: Q9V118
Secondary accession number(s): G8ZJ76
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 25, 2003
Last sequence update: May 1, 2000
Last modified: November 30, 2016
This is version 93 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.