Genome location: Pf3D7_13_v3:2,353,589..2,357,798(+)
Genome classification: Core
Product Description: exosome complex exonuclease RRP44
SignalP Peptide: N/A
# Transmembrane Domains: 0
EC Numbers: 3.1.13.- (Exoribonucleases producing 5'-phosphomonoesters.);3.1.16.1 (Spleen exonuclease)
Curated GO (PlasmoDB):
| Type | GO Term | Name |
|---|---|---|
| Component | GO:0005737 | cytoplasm |
| Component | GO:0000177 | cytoplasmic exosome (RNase complex) |
| Component | GO:0005829 | cytosol |
| Component | GO:0000178 | exosome (RNase complex) |
| Component | GO:0000176 | nuclear exosome (RNase complex) |
| Component | GO:0048471 | perinuclear region of cytoplasm |
| Function | GO:0000175 | 3'-5'-exoribonuclease activity |
| Function | GO:0003723 | RNA binding |
| Function | GO:0004519 | endonuclease activity |
| Function | GO:0005515 | protein binding |
| Function | GO:0004540 | ribonuclease activity |
| Process | GO:0006401 | RNA catabolic process |
| Process | GO:0110064 | lncRNA catabolic process |
| Process | GO:0016075 | rRNA catabolic process |
| Process | GO:0043488 | regulation of mRNA stability |
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 | expressed | 0.40 | 0.80 |
| Trophozoite | expressed | 0.71 | 0.60 |
| Schizont | expressed | 0.16 | 0.90 |
| Gametocyte | expressed | 0.64 | 0.64 |
More info:
Old (Pf3D7v3) Gene ID: PF3D7_1359300
Resistome Missense Mutations: None
Resistome Compounds with Missense Mutations: None
Resistome # Samples with Disruptive Mutations: 0 (0 missense, 0 "interesting" missense)
Zhang Phenotype: Mutable in CDS
MIS: 1 | MFS: -1.136 | #Insertions: 3
PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_1135600)
RMgmDB ABS Phenotype: N/A
More info: PhenoPlasm Link
AlphaFill Uniprot ID: Q8IDB6
"Best" AlphaFill ligand hit: U5P (uridine-5'-monophosphate, Local RMSD=0.42) with 7TUV (Global RMSD=2.58)
BRENDA EC Inhibitors:
No evidence of orthology to BindingDB entries
Ortholog Group (OrthoMCL): OG6_101226
Most Similar Human Ortholog: Q9Y2L1
TM-align score: 0.86 | RMSD: 3.67
Seq Identity: 0.30 | Length: 898 / 1073
All Human Orthologs (OrthoMCL):
| Gene ID | Description |
|---|---|
| ENSG00000083520 | DIS3 homolog, exosome endoribonuclease and 3-5 exoribonuclease |
MalariaGEN Pf7 (worldwide samples) # unique SNV/indels:
Homozygous genotype calls only
| variant type | common | rare | doubleton | singleton |
|---|---|---|---|---|
| synonymous | 16 | 76 | 48 | 72 |
| disruptive | 12 | 153 | 68 | 206 |
| missense | 9 | 135 | 64 | 187 |
Any inclusion in genotype call
| variant type | common | rare | doubleton | singleton |
|---|---|---|---|---|
| synonymous | 25 | 158 | 51 | 68 |
| disruptive | 44 | 307 | 136 | 303 |
| missense | 30 | 268 | 118 | 247 |
PlasmoDB Total SNPs: 177
Non-coding: 94 | Synonymous: 58 | Nonsynonymous: 25 | Stop Codon: 0
Protein Length: 1073 | Molecular Weight (kDa): 126.662
UniProt ID(s): Q8IDB6
PDB ID(s): None
Isoelectric Point: 7.31
Protein Domain Annotations:
| Source | Family ID | Description |
|---|---|---|
| InterPro | IPR001900 | Ribonuclease II/R |
| InterPro | IPR012340 | Nucleic acid-binding, OB-fold |
| InterPro | IPR022966 | Ribonuclease II/R, conserved site |
| InterPro | IPR041505 | Dis3-like cold-shock domain 2 |
| PFam | PF00773 | Ribonuclease II/R |
| PFam | PF17849 | Dis3-like cold-shock domain 2 |
| Superfamily | SSF50249 | Nucleic acid-binding, OB-fold |
| PMID | Title | Authors | DOI/Link |
|---|---|---|---|
| 25043062 | Exonuclease-mediated degradation of nascent RNA silences genes linked to severemalaria. | Zhang Q, Siegel TN, ..., Scherf A | 10.1038/nature13468 |
| 29664138 | Characterization of the Catalytic Subunits of the RNA Exosome-like Complex inPlasmodium falciparum. | Jiang N, Yu S, ..., Chen Q | 10.1111/jeu.12625 |
| 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 |
| 31737630 | TRIBE Uncovers the Role of Dis3 in Shaping the Dynamic Transcriptome in MalariaParasites. | Liu M, Lu B, ..., Zhang Q | 10.3389/fcell.2019.00264 |
| 32079470 | The cryptic unstable transcripts are associated with developmentally regulatedgene expression in blood-stage Plasmodium falciparum. | Yin S, Fan Y, ..., Zhang Q | 10.1080/15476286.2020.1732032 |
| 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 |
| 38316765 | Engineering stringent genetic biocontainment of yeast with a protein stabilityswitch | Hoffmann SA, Cai Y | 10.1038/s41467-024-44988-8 |