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Protein

Exosome complex component Rrp42

Gene

rrp42

Organism
Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
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:AF_0494
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

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001399961 – 259Exosome complex component Rrp42Add BLAST259

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.AF0494.

Structurei

Secondary structure

1259
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi5 – 19Combined sources15
Beta strandi35 – 39Combined sources5
Beta strandi45 – 53Combined sources9
Beta strandi56 – 67Combined sources12
Beta strandi78 – 84Combined sources7
Beta strandi91 – 93Combined sources3
Beta strandi95 – 98Combined sources4
Helixi100 – 115Combined sources16
Helixi121 – 124Combined sources4
Beta strandi125 – 127Combined sources3
Turni128 – 130Combined sources3
Beta strandi131 – 143Combined sources13
Helixi148 – 161Combined sources14
Helixi168 – 170Combined sources3
Beta strandi172 – 174Combined sources3
Beta strandi185 – 192Combined sources8
Beta strandi195 – 199Combined sources5
Helixi204 – 207Combined sources4
Beta strandi211 – 216Combined sources6
Beta strandi222 – 230Combined sources9
Helixi235 – 254Combined sources20

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2BA0X-ray2.70G/H/I1-259[»]
2BA1X-ray2.70G/H/I1-259[»]
3M7NX-ray2.40G/H/I1-259[»]
3M85X-ray3.00G/H/I1-259[»]
ProteinModelPortaliO29756.
SMRiO29756.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO29756.

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiarCOG01574. Archaea.
COG2123. LUCA.
KOiK12589.
OMAiGIRESKM.

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. 1 hit.
SSF55666. SSF55666. 1 hit.

Sequencei

Sequence statusi: Complete.

O29756-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPEDILVDIK RDYVLSKLRD NERIDGRGFD EFRKVEIIPN VIEKAEGSAL
60 70 80 90 100
VKLGDTQVVV GVKMQPGEPY PDTPDRGVII VNAELVPLAS PTFEPGPPDE
110 120 130 140 150
NSIELARVVD RGIRESEAVD LSKLVIEEGE KVWIVFVDIH ALDDDGNLLD
160 170 180 190 200
ASALAAIAAL MNTKVPAERF DLGEDYLLPV RDLPVSVTSL IVGNKYLVDP
210 220 230 240 250
SREEMSVGDT TLTITTDKDD NVVAMQKSGG YLLDEKLFDE LLDVSINCAR

KLREKFKEI
Length:259
Mass (Da):28,647
Last modified:January 1, 1998 - v1
Checksum:iE8289D46F9DDCCB3
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000782 Genomic DNA. Translation: AAB90743.1.
PIRiF69311.
RefSeqiWP_010878001.1. NC_000917.1.

Genome annotation databases

EnsemblBacteriaiAAB90743; AAB90743; AF_0494.
GeneIDi24794034.
KEGGiafu:AF_0494.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000782 Genomic DNA. Translation: AAB90743.1.
PIRiF69311.
RefSeqiWP_010878001.1. NC_000917.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2BA0X-ray2.70G/H/I1-259[»]
2BA1X-ray2.70G/H/I1-259[»]
3M7NX-ray2.40G/H/I1-259[»]
3M85X-ray3.00G/H/I1-259[»]
ProteinModelPortaliO29756.
SMRiO29756.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi224325.AF0494.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAB90743; AAB90743; AF_0494.
GeneIDi24794034.
KEGGiafu:AF_0494.

Phylogenomic databases

eggNOGiarCOG01574. Archaea.
COG2123. LUCA.
KOiK12589.
OMAiGIRESKM.

Miscellaneous databases

EvolutionaryTraceiO29756.

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. 1 hit.
SSF55666. SSF55666. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiRRP42_ARCFU
AccessioniPrimary (citable) accession number: O29756
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 25, 2003
Last sequence update: January 1, 1998
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.