Genome location: Pf3D7_11_v3:1,000,521..1,001,954(-)
Genome classification: Core
Product Description: small nuclear ribonucleoprotein Sm D1, putative
SignalP Peptide: N/A
# Transmembrane Domains: 0
EC Numbers: None
Curated GO (PlasmoDB):
| Type | GO Term | Name |
|---|---|---|
| Component | GO:0034719 | SMN-Sm protein complex |
| Component | GO:0005685 | U1 snRNP |
| Component | GO:0005689 | U12-type spliceosomal complex |
| Component | GO:0005686 | U2 snRNP |
| Component | GO:0005687 | U4 snRNP |
| Component | GO:0005682 | U5 snRNP |
| Component | GO:0071013 | catalytic step 2 spliceosome |
| Component | GO:0000243 | commitment complex |
| Component | GO:0005634 | nucleus |
| Component | GO:0034715 | pICln-Sm protein complex |
| Component | GO:0071011 | precatalytic spliceosome |
| Component | GO:0030532 | small nuclear ribonucleoprotein complex |
| Component | GO:0097526 | spliceosomal tri-snRNP complex |
| Function | GO:0003723 | RNA binding |
| Function | GO:0005515 | protein binding |
| Process | GO:0008380 | RNA splicing |
| Process | GO:0000375 | RNA splicing, via transesterification reactions |
| Process | GO:0000398 | mRNA splicing, via spliceosome |
| Process | GO:0000387 | spliceosomal snRNP assembly |
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 | 0.15 | 0.92 |
| Trophozoite | possibly expressed | 0.28 | 0.82 |
| Schizont | expressed | 0.04 | 0.97 |
| Gametocyte | possibly expressed | 0.12 | 0.93 |
More info:
Old (Pf3D7v3) Gene ID: PF3D7_1125500
Resistome Missense Mutations: None
Resistome Compounds with Missense Mutations: None
Resistome # Samples with Disruptive Mutations: 3 (0 missense, 0 "interesting" missense)
Zhang Phenotype: Non - Mutable in CDS *tentative
MIS: 0.999 | MFS: 0 | #Insertions: 0
PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_0922800)
RMgmDB ABS Phenotype: N/A
More info: PhenoPlasm Link
AlphaFill Uniprot ID: Q8IIA8
"Best" AlphaFill ligand hit: No AlphaFill hits
No associated EC numbersNo evidence of orthology to BindingDB entries
Ortholog Group (OrthoMCL): OG6_102452
Most Similar Human Ortholog: P62314
TM-align score: 0.72 | RMSD: 2.05
Seq Identity: 0.59 | Length: 96 / 126
All Human Orthologs (OrthoMCL):
| Gene ID | Description |
|---|---|
| ENSG00000167088 | small nuclear ribonucleoprotein D1 polypeptide |
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 | 0 | 0 |
| missense | 0 | 0 | 0 | 0 |
Any inclusion in genotype call
| variant type | common | rare | doubleton | singleton |
|---|---|---|---|---|
| synonymous | 0 | 0 | 0 | 1 |
| disruptive | 0 | 1 | 0 | 1 |
| missense | 0 | 0 | 0 | 0 |
PlasmoDB Total SNPs: 111
Non-coding: 104 | Synonymous: 6 | Nonsynonymous: 1 | Stop Codon: 0
Protein Length: 126 | Molecular Weight (kDa): 14.337
UniProt ID(s): Q8IIA8
PDB ID(s): None
Isoelectric Point: 10.91
Protein Domain Annotations:
| Source | Family ID | Description |
|---|---|---|
| InterPro | IPR001163 | LSM domain, eukaryotic/archaea-type |
| InterPro | IPR010920 | LSM domain superfamily |
| InterPro | IPR027141 | Like-Sm (LSM) domain containing protein, LSm4/SmD1/SmD3 |
| InterPro | IPR034102 | Small nuclear ribonucleoprotein D1 |
| 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 |
| 20713134 | Plasmodium falciparum Tudor Staphylococcal Nuclease interacting proteins suggestits role in nuclear as well as splicing processes. | Hossain MJ, Korde R, ..., Malhotra P | 10.1016/j.gene.2010.08.004 |
| 23181666 | Organellar proteomics reveals hundreds of novel nuclear proteins in the malariaparasite Plasmodium falciparum. | Oehring SC, Woodcroft BJ, ..., Voss TS | 10.1186/gb-2012-13-11-r108 |
| 24047207 | Organization of Plasmodium falciparum spliceosomal core complex and role ofarginine methylation in its assembly. | Hossain M, Sharma S, ..., Malhotra P | 10.1186/1475-2875-12-333 |