Genome location: Pf3D7_14_v3:1,088,099..1,089,750(-)
Genome classification: Core
Product Description: exosome complex component RRP41
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:0000177 | cytoplasmic exosome (RNase complex) |
| Component | GO:0000178 | exosome (RNase complex) |
| Component | GO:0000176 | nuclear exosome (RNase complex) |
| Component | GO:0005730 | nucleolus |
| Function | GO:0004527 | exonuclease activity |
| Process | GO:0034475 | U4 snRNA 3'-end processing |
| Process | GO:0071028 | nuclear mRNA surveillance |
| Process | GO:0034427 | nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5' |
| Process | GO:0071051 | polyadenylation-dependent snoRNA 3'-end processing |
| Process | GO:0016075 | rRNA catabolic process |
| 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 | expressed | 0.13 | 0.93 |
| Trophozoite | expressed | 0.16 | 0.90 |
| Schizont | expressed | 0.02 | 0.99 |
| Gametocyte | expressed | 0.22 | 0.86 |
More info:
Old (Pf3D7v3) Gene ID: PF3D7_1427800
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: 0.137 | MFS: -3.081 | #Insertions: 0
PlasmoGEM Phenotype: Slow (Pb ortholog: PBANKA_1016800)
RMgmDB ABS Phenotype: Different from wild type (Pb ortholog: PBANKA_1016800)
Modification: Disrupted | RMgm-2799
More info: PhenoPlasm Link
AlphaFill Uniprot ID: Q8ILI7
"Best" AlphaFill ligand hit: U5P (uridine-5'-monophosphate, Local RMSD=0.02) with 2C37 (Global RMSD=2.67)
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_101074
Most Similar Human Ortholog: Q9NPD3
TM-align score: 0.92 | RMSD: 1.79
Seq Identity: 0.33 | Length: 239 / 246
All Human Orthologs (OrthoMCL):
| Gene ID | Description |
|---|---|
| ENSG00000178896 | exosome component 4 |
MalariaGEN Pf7 (worldwide samples) # unique SNV/indels:
Homozygous genotype calls only
| variant type | common | rare | doubleton | singleton |
|---|---|---|---|---|
| synonymous | 4 | 13 | 2 | 20 |
| disruptive | 1 | 8 | 8 | 23 |
| missense | 1 | 8 | 8 | 22 |
Any inclusion in genotype call
| variant type | common | rare | doubleton | singleton |
|---|---|---|---|---|
| synonymous | 6 | 23 | 10 | 18 |
| disruptive | 5 | 32 | 18 | 46 |
| missense | 4 | 25 | 16 | 25 |
PlasmoDB Total SNPs: 71
Non-coding: 57 | Synonymous: 9 | Nonsynonymous: 5 | Stop Codon: 0
Protein Length: 246 | Molecular Weight (kDa): 27.658
UniProt ID(s): Q8ILI7
PDB ID(s): None
Isoelectric Point: 5.4
Protein Domain Annotations:
| Source | Family ID | Description |
|---|---|---|
| InterPro | IPR001247 | Exoribonuclease, phosphorolytic domain 1 |
| InterPro | IPR020568 | Ribosomal protein S5 domain 2-type fold |
| InterPro | IPR036345 | Exoribonuclease, PH domain 2 superfamily |
| PFam | PF01138 | Exoribonuclease, phosphorolytic domain 1 |
| Superfamily | SSF54211 | Ribosomal protein S5 domain 2-type fold |
| Superfamily | SSF55666 | Exoribonuclease, PH domain 2 superfamily |
| PMID | Title | Authors | DOI/Link |
|---|---|---|---|
| 12368864 | Genome sequence of the human malaria parasite Plasmodium falciparum. | Gardner MJ, Hall N, ..., Barrell B | 10.1038/nature01097 |
| 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 |
| 23132787 | RRP41L, a putative core subunit of the exosome, plays an important role in seedgermination and early seedling growth in Arabidopsis | Yang M, Zhang B, ..., Han Y | 10.1104/pp.112.206706 |
| 34664673 | Nrd1p identifies aberrant and natural exosomal target messages during the nuclearmRNA surveillance in Saccharomyces cerevisiae | Singh P, Chaudhuri A, ..., Das B | 10.1093/nar/gkab930 |
| 28355211 | Transcriptome-wide analysis of alternative routes for RNA substrates into the exosome complex | Delan-Forino C, Schneider C, Tollervey D | 10.1371/journal.pgen.1006699 |
| 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 |
| 23852635 | Experimental analysis of co-evolution within protein complexes: the yeast exosomeas a model | Sandler I, Medalia O, Aharoni A | 10.1002/prot.24360 |
| 32554806 | Nucleolar localization of the yeast RNA exosome subunit Rrp44 hints at earlypre-rRNA processing as its main function | Okuda EK, Gonzales-Zubiate FA, Gadal O, Oliveira CC | 10.1074/jbc.RA120.013589 |