Genome location: Pf3D7_14_v3:1,775,669..1,776,938(+)
Genome classification: Core
Product Description: U6 snRNA-associated Sm-like protein LSm5, putative
SignalP Peptide: N/A
# Transmembrane Domains: 0
EC Numbers: None
Curated GO (PlasmoDB):
| Type | GO Term | Name |
|---|---|---|
| Component | GO:1990726 | Lsm1-7-Pat1 complex |
| Component | GO:0046540 | U4/U6 x U5 tri-snRNP complex |
| Component | GO:0005688 | U6 snRNP |
| Component | GO:0005634 | nucleus |
| Component | GO:0005732 | sno(s)RNA-containing ribonucleoprotein complex |
| Process | GO:0008380 | RNA splicing |
| Process | GO:0000398 | mRNA splicing, via spliceosome |
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 | 0.81 |
| Trophozoite | expressed | 0.39 | 0.76 |
| Schizont | expressed | 0.06 | 0.95 |
| Gametocyte | expressed | 0.17 | 0.90 |
More info:
Old (Pf3D7v3) Gene ID: PF3D7_1443300
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: 0.121 | MFS: -3.185 | #Insertions: 0
PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_1307200)
RMgmDB ABS Phenotype: N/A
More info: PhenoPlasm Link
AlphaFill Uniprot ID: Q8IL38
"Best" AlphaFill ligand hit: No AlphaFill hits
No associated EC numbersNo evidence of orthology to BindingDB entries
Ortholog Group (OrthoMCL): OG6_103447
Most Similar Human Ortholog: Q9Y4Y9
TM-align score: 0.88 | RMSD: 1.47
Seq Identity: 0.54 | Length: 86 / 101
All Human Orthologs (OrthoMCL):
| Gene ID | Description |
|---|---|
| ENSG00000106355 | LSM5 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 | 1 | 5 | 0 | 10 |
| disruptive | 0 | 5 | 3 | 13 |
| missense | 0 | 5 | 3 | 11 |
Any inclusion in genotype call
| variant type | common | rare | doubleton | singleton |
|---|---|---|---|---|
| synonymous | 1 | 12 | 1 | 10 |
| disruptive | 2 | 14 | 13 | 18 |
| missense | 2 | 14 | 12 | 13 |
PlasmoDB Total SNPs: 44
Non-coding: 41 | Synonymous: 3 | Nonsynonymous: 0 | Stop Codon: 0
Protein Length: 101 | Molecular Weight (kDa): 11.37
UniProt ID(s): Q8IL38
PDB ID(s): None
Isoelectric Point: 4.62
Protein Domain Annotations:
| Source | Family ID | Description |
|---|---|---|
| InterPro | IPR001163 | LSM domain, eukaryotic/archaea-type |
| InterPro | IPR010920 | LSM domain superfamily |
| InterPro | IPR033871 | Sm-like protein LSm5 |
| PFam | PF01423 | LSM domain, eukaryotic/archaea-type |
| Superfamily | SSF50182 | LSM domain 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 |
| 30379851 | Identification of Plasmodium falciparum nuclear proteins by mass spectrometry andproposed protein annotation. | Briquet S, Ourimi A, ..., Vaquero C | 10.1371/journal.pone.0205596 |
| 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 |
| 18433897 | Identification of the heptameric Lsm complex that binds U6 snRNA in Trypanosomabrucei | Tkacz ID, Cohen S, Salmon-Divon M, Michaeli S | 10.1016/j.molbiopara.2008.03.003 |
| 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 |
| 29615482 | Defining essential elements and genetic interactions of the yeast Lsm2-8 ring anddemonstration that essentiality of Lsm2-8 is bypassed via overexpression of U6snRNA or the U6 snRNP subunit Prp24 | Roth AJ, Shuman S, Schwer B | 10.1261/rna.066175.118 |