Genome location: Pf3D7_13_v3:1,042,495..1,043,464(-)
Genome classification: Core
Product Description: U6 snRNA-associated Sm-like protein LSm6, putative
SignalP Peptide: N/A
# Transmembrane Domains: 0
EC Numbers: None
Curated GO (PlasmoDB):
| Type | GO Term | Name |
|---|---|---|
| Component | GO:0000932 | P-body |
| Component | GO:0046540 | U4/U6 x U5 tri-snRNP complex |
| Component | GO:0005688 | U6 snRNP |
| Component | GO:0005730 | nucleolus |
| Component | GO:0005634 | nucleus |
| Component | GO:0005732 | sno(s)RNA-containing ribonucleoprotein complex |
| Component | GO:0005681 | spliceosomal complex |
| Function | GO:0003723 | RNA binding |
| Process | GO:0000375 | RNA splicing, via transesterification reactions |
| Process | GO:0000398 | mRNA splicing, via spliceosome |
| Process | GO:0030490 | maturation of SSU-rRNA |
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 | 0.02 | 0.99 |
| Trophozoite | possibly expressed | 0.05 | 0.97 |
| Schizont | possibly expressed | 0.01 | 1.00 |
| Gametocyte | not expressed | 0.02 | 0.99 |
More info:
Old (Pf3D7v3) Gene ID: PF3D7_1325000
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 *tentative
MIS: 0.659 | MFS: -2.166 | #Insertions: 0
PlasmoGEM Phenotype: Slow (Pb ortholog: PBANKA_1340200)
RMgmDB ABS Phenotype: Different from wild type (Pb ortholog: PBANKA_1340200)
Modification: Disrupted | RMgm-3593
More info: PhenoPlasm Link
AlphaFill Uniprot ID: Q8IE68
"Best" AlphaFill ligand hit: No AlphaFill hits
No associated EC numbersNo evidence of orthology to BindingDB entries
Ortholog Group (OrthoMCL): OG6_102118
Most Similar Human Ortholog: P62312
TM-align score: 0.93 | RMSD: 1.22
Seq Identity: 0.56 | Length: 77 / 77
All Human Orthologs (OrthoMCL):
| Gene ID | Description |
|---|---|
| ENSG00000164167 | LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated |
MalariaGEN Pf7 (worldwide samples) # unique SNV/indels:
Homozygous genotype calls only
| variant type | common | rare | doubleton | singleton |
|---|---|---|---|---|
| synonymous | 0 | 0 | 0 | 0 |
| disruptive | 0 | 0 | 1 | 0 |
| missense | 0 | 0 | 0 | 0 |
Any inclusion in genotype call
| variant type | common | rare | doubleton | singleton |
|---|---|---|---|---|
| synonymous | 0 | 0 | 0 | 0 |
| disruptive | 0 | 0 | 1 | 0 |
| missense | 0 | 0 | 0 | 0 |
PlasmoDB Total SNPs: 48
Non-coding: 46 | Synonymous: 2 | Nonsynonymous: 0 | Stop Codon: 0
Protein Length: 77 | Molecular Weight (kDa): 8.844
UniProt ID(s): Q8IE68
PDB ID(s): None
Isoelectric Point: 4.21
Protein Domain Annotations:
| Source | Family ID | Description |
|---|---|---|
| InterPro | IPR001163 | LSM domain, eukaryotic/archaea-type |
| InterPro | IPR010920 | LSM domain superfamily |
| InterPro | IPR016487 | Sm-like protein Lsm6/SmF |
| PFam | PF01423 | LSM domain, eukaryotic/archaea-type |
| Superfamily | SSF50182 | LSM domain superfamily |
| PMID | Title | Authors | DOI/Link |
|---|---|---|---|
| 30379851 | Identification of Plasmodium falciparum nuclear proteins by mass spectrometry andproposed protein annotation. | Briquet S, Ourimi A, ..., Vaquero C | 10.1371/journal.pone.0205596 |
| 22615807 | Crystal structures of Lsm3, Lsm4 and Lsm5/6/7 from Schizosaccharomyces pombe | Wu D, Jiang S, Bowler MW, Song H | 10.1371/journal.pone.0036768 |
| 23021959 | Sm-like protein enhanced tolerance of recombinant Saccharomyces cerevisiae toinhibitors in hemicellulosic hydrolysate | Gao L, Xia L | 10.1016/j.biortech.2012.08.104 |
| 18329667 | Crystal structure of Lsm3 octamer from Saccharomyces cerevisiae: implications forLsm ring organisation and recruitment | Naidoo N, Harrop SJ, ..., Mabbutt BC | 10.1016/j.jmb.2008.01.007 |
| 11333229 | Multiple functional interactions between components of the Lsm2-Lsm8 complex, U6snRNA, and the yeast La protein | Pannone BK, Kim SD, Noe DA, Wolin SL | 10.1093/genetics/158.1.187 |