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Protein

Exosome complex component Csl4

Gene

csl4

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

Non-catalytic component of the exosome, which is a complex involved in RNA degradation. Increases the RNA binding and the efficiency of RNA degradation. Helpful for the interaction of the exosome with A-poor RNAs (Probable).2 Publications

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi143ZincUniRule annotation2 Publications1
Metal bindingi146ZincUniRule annotation2 Publications1
Metal bindingi159ZincUniRule annotation2 Publications1
Metal bindingi162ZincUniRule annotation2 Publications1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Ligandi

Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Exosome complex component Csl4UniRule annotation
Gene namesi
Name:csl4UniRule annotation
Ordered Locus Names:AF_0206
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_00004247201 – 179Exosome complex component Csl4Add BLAST179

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. Interacts with DnaG (Probable).2 Publications

Protein-protein interaction databases

STRINGi224325.AF0206.

Structurei

Secondary structure

1179
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi9 – 12Combined sources4
Turni13 – 15Combined sources3
Beta strandi16 – 18Combined sources3
Beta strandi22 – 25Combined sources4
Beta strandi28 – 40Combined sources13
Beta strandi43 – 50Combined sources8
Beta strandi60 – 68Combined sources9
Beta strandi70 – 80Combined sources11
Beta strandi91 – 96Combined sources6
Helixi97 – 99Combined sources3
Helixi108 – 110Combined sources3
Beta strandi117 – 124Combined sources8
Turni125 – 127Combined sources3
Beta strandi128 – 130Combined sources3
Beta strandi133 – 135Combined sources3
Beta strandi137 – 140Combined sources4
Turni144 – 146Combined sources3
Beta strandi151 – 153Combined sources3
Beta strandi154 – 158Combined sources5
Beta strandi160 – 162Combined sources3
Turni172 – 177Combined sources6

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2BA1X-ray2.70A/B/C1-179[»]
3M7NX-ray2.40A/B/C1-179[»]
3M85X-ray3.00A/B/C1-179[»]
ProteinModelPortaliO30033.
SMRiO30033.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO30033.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini58 – 137S1 motifUniRule annotationAdd BLAST80

Domaini

Contains an N-terminal domain that mediates interactions with the hexameric ring, a central S1 domain and a C-terminal zinc-ribbon domain.1 Publication

Sequence similaritiesi

Belongs to the CSL4 family.UniRule annotation
Contains 1 S1 motif domain.UniRule annotation

Phylogenomic databases

eggNOGiarCOG00676. Archaea.
COG1096. LUCA.
KOiK07573.
OMAiCGNVETR.

Family and domain databases

HAMAPiMF_00975. Exosome_Csl4. 1 hit.
InterProiIPR019495. EXOSC1.
IPR025721. Exosome_cplx_N_dom.
IPR030850. Exosome_Csl4_arc.
IPR012340. NA-bd_OB-fold.
IPR022967. S1_dom.
[Graphical view]
PfamiPF14382. ECR1_N. 1 hit.
PF10447. EXOSC1. 1 hit.
[Graphical view]
SMARTiSM00316. S1. 1 hit.
[Graphical view]
SUPFAMiSSF50249. SSF50249. 1 hit.

Sequencei

Sequence statusi: Complete.

O30033-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRFVMPGDRI GSAEEYVKGE GVYEEGGELF AAVAGKLIIK DRVAKVESIS
60 70 80 90 100
PIPEIVKGDV VLGRVVDLRN SIALIEVSSK KGENRGPSNR GIGILHVSNV
110 120 130 140 150
DEGYVKEISE AVGYLDILKA RVIGDNLRLS TKEEEMGVLR ALCSNCKTEM
160 170
VREGDILKCP ECGRVEKRKI STDYGKGEW
Length:179
Mass (Da):19,597
Last modified:January 1, 1998 - v1
Checksum:i3106D5592EF6EAF7
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000782 Genomic DNA. Translation: AAB91036.1.
PIRiF69275.
RefSeqiWP_010877717.1. NC_000917.1.

Genome annotation databases

EnsemblBacteriaiAAB91036; AAB91036; AF_0206.
GeneIDi24793740.
KEGGiafu:AF_0206.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000782 Genomic DNA. Translation: AAB91036.1.
PIRiF69275.
RefSeqiWP_010877717.1. NC_000917.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2BA1X-ray2.70A/B/C1-179[»]
3M7NX-ray2.40A/B/C1-179[»]
3M85X-ray3.00A/B/C1-179[»]
ProteinModelPortaliO30033.
SMRiO30033.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi224325.AF0206.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAB91036; AAB91036; AF_0206.
GeneIDi24793740.
KEGGiafu:AF_0206.

Phylogenomic databases

eggNOGiarCOG00676. Archaea.
COG1096. LUCA.
KOiK07573.
OMAiCGNVETR.

Miscellaneous databases

EvolutionaryTraceiO30033.

Family and domain databases

HAMAPiMF_00975. Exosome_Csl4. 1 hit.
InterProiIPR019495. EXOSC1.
IPR025721. Exosome_cplx_N_dom.
IPR030850. Exosome_Csl4_arc.
IPR012340. NA-bd_OB-fold.
IPR022967. S1_dom.
[Graphical view]
PfamiPF14382. ECR1_N. 1 hit.
PF10447. EXOSC1. 1 hit.
[Graphical view]
SMARTiSM00316. S1. 1 hit.
[Graphical view]
SUPFAMiSSF50249. SSF50249. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiCSL4_ARCFU
AccessioniPrimary (citable) accession number: O30033
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 11, 2013
Last sequence update: January 1, 1998
Last modified: November 2, 2016
This is version 99 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

The zinc ion has probably a structural role.1 Publication

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.