Product Description: exosome complex component CSL4, putative
SignalP Peptide: N/A
# Transmembrane Domains: 0
EC Numbers: 3.1.13.1 (Exoribonuclease II)
Curated GO (PlasmoDB):
| Type | GO Term | Name |
|---|---|---|
| Component | GO:0005737 | cytoplasm |
| Component | GO:0000178 | exosome (RNase complex) |
| Component | GO:0000176 | nuclear exosome (RNase complex) |
| Function | GO:0000175 | 3'-5'-exoribonuclease activity |
| Function | GO:0008312 | 7S RNA binding |
| Function | GO:0004532 | exoribonuclease activity |
| Process | GO:0006364 | rRNA processing |
Expression by stage (LR - Le Roch et al., and MCA - Malaria Cell Atlas):
| Stage | LR class | MCA mean | MCA prop. zeros |
|---|---|---|---|
| Sporozoite | not expressed | N/A | N/A |
| Ring | possibly expressed | 0.06 | 0.97 |
| Trophozoite | expressed | 0.11 | 0.92 |
| Schizont | possibly expressed | 0.01 | 0.99 |
| Gametocyte | expressed | 0.05 | 0.97 |
More info:
Old (Pf3D7v3) Gene ID: PF3D7_0720000
Resistome Missense Mutations: None
Resistome Compounds with Missense Mutations: None
Resistome # Samples with Disruptive Mutations: 0 (0 missense, 0 "interesting" missense)
Zhang Phenotype: Non - Mutable in CDS
MIS: 0.135 | MFS: -2.898 | #Insertions: 0
PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_0617500)
RMgmDB ABS Phenotype: N/A
More info: PhenoPlasm Link
AlphaFill Uniprot ID: Q8IBQ2
"Best" AlphaFill ligand hit: No AlphaFill hits
BRENDA EC Inhibitors:
| EC # | Name | EC Inhibitors |
|---|---|---|
| 3.1.13.1 | exoribonuclease II | SDSEDTArRNAsucrosePoly(U)Poly(G)sperminepoly(dC)nicotinamidetrichostatin A5'-capped mRNAds plasmid DNA... |
No evidence of orthology to BindingDB entries
Ortholog Group (OrthoMCL): OG6_101821
Most Similar Human Ortholog: B1AMU4
TM-align score: 0.82 | RMSD: 2.73
Seq Identity: 0.29 | Length: 172 / 195
All Human Orthologs (OrthoMCL):
| Gene ID | Description |
|---|---|
| ENSG00000171311 | exosome component 1 |
MalariaGEN Pf7 (worldwide samples) # unique SNV/indels:
Homozygous genotype calls only
| variant type | common | rare | doubleton | singleton |
|---|---|---|---|---|
| synonymous | 1 | 8 | 6 | 8 |
| disruptive | 1 | 11 | 8 | 23 |
| missense | 1 | 10 | 8 | 20 |
Any inclusion in genotype call
| variant type | common | rare | doubleton | singleton |
|---|---|---|---|---|
| synonymous | 2 | 20 | 7 | 12 |
| disruptive | 2 | 28 | 18 | 49 |
| missense | 2 | 25 | 15 | 32 |
PlasmoDB Total SNPs: 137
Non-coding: 127 | Synonymous: 8 | Nonsynonymous: 2 | Stop Codon: 0
Protein Length: 195 | Molecular Weight (kDa): 22.041
UniProt ID(s): Q8IBQ2
PDB ID(s): None
Isoelectric Point: 7.76
Protein Domain Annotations:
| Source | Family ID | Description |
|---|---|---|
| InterPro | IPR012340 | Nucleic acid-binding, OB-fold |
| InterPro | IPR022967 | RNA-binding domain, S1 |
| InterPro | IPR025721 | Exosome complex component, N-terminal domain |
| InterPro | IPR039771 | Exosome complex component Csl4 |
| PFam | PF14382 | Exosome complex component, N-terminal domain |
| Superfamily | SSF110324 | Nucleic acid-binding, OB-fold |
| Superfamily | SSF50249 |
| PMID | Title | Authors | DOI/Link |
|---|---|---|---|
| 30235972 | Disruption of the RNA exosome reveals the hidden face of the malaria parasitetranscriptome. | Droll D, Wei G, ..., Zhang Q | 10.1080/15476286.2018.1517014 |
| 20488181 | The archaeal exosome localizes to the membrane | Roppelt V, Hobel CF, ..., Evguenieva-Hackenberg E | 10.1016/j.febslet.2010.05.013 |
| 27345150 | Structure of a Cytoplasmic 11-Subunit RNA Exosome Complex | Kowalinski E, Kogel A, ..., Conti E | 10.1016/j.molcel.2016.05.028 |
| 24789718 | Structure and function of the archaeal exosome | Evguenieva-Hackenberg E, Hou L, Glaeser S, Klug G | 10.1002/wrna.1234 |
| 23530048 | A prototypic lysine methyltransferase 4 from archaea with degenerate sequence specificity methylates chromatin proteins Sul7d and Cren7 in different patterns | Niu Y, Xia Y, ..., Cao Q | 10.1074/jbc.M113.452979 |
| 23000172 | Transcriptome-wide analysis of exosome targets | Schneider C, Kudla G, ..., Tollervey D | 10.1016/j.molcel.2012.08.013 |
| 21713675 | The archaeal exosome | Evguenieva-Hackenberg E | 10.1007/978-1-4419-7841-7_3 |
| 23324612 | The archaeal DnaG protein needs Csl4 for binding to the exosome and enhances its interaction with adenine-rich RNAs | Hou L, Klug G, Evguenieva-Hackenberg E | 10.4161/rna.23450 |
| 20488184 | The evolutionarily conserved subunits Rrp4 and Csl4 confer different substrate specificities to the archaeal exosome | Roppelt V, Klug G, Evguenieva-Hackenberg E | 10.1016/j.febslet.2010.05.014 |
| 36861343 | In vivo characterization of the critical interaction between the RNA exosome andthe essential RNA helicase Mtr4 in Saccharomyces cerevisiae | Sterrett MC, Farchi D, ..., Corbett AH | 10.1093/g3journal/jkad049 |
| 29159940 | Nop5 interacts with the archaeal RNA exosome | Gauernack AS, Lassek C, ..., Klug G | 10.1002/1873-3468.12915 |