Genome location: Pf3D7_06_v3:1,275,505..1,278,363(+)
Genome classification: Core
Product Description: ribosome biogenesis protein YTM1, putative
SignalP Peptide: N/A
# Transmembrane Domains: 0
EC Numbers: None
Curated GO (PlasmoDB):
| Type | GO Term | Name |
|---|---|---|
| Component | GO:0070545 | PeBoW complex |
| Component | GO:0005730 | nucleolus |
| Component | GO:0030687 | preribosome, large subunit precursor |
| Function | GO:0008092 | cytoskeletal protein binding |
| Process | GO:0007010 | cytoskeleton organization |
| Process | GO:0042273 | ribosomal large subunit biogenesis |
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 | 0.31 | 0.85 |
| Trophozoite | expressed | 0.37 | 0.79 |
| Schizont | possibly expressed | 0.08 | 0.95 |
| Gametocyte | possibly expressed | 0.21 | 0.87 |
More info:
Old (Pf3D7v3) Gene ID: PF3D7_0630500
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: 0.157 | MFS: -2.795 | #Insertions: 0
PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_1129300)
RMgmDB ABS Phenotype: N/A
More info: PhenoPlasm Link
AlphaFill Uniprot ID: C6KTE0
"Best" AlphaFill ligand hit: SIW (keggin (sta), Local RMSD=0.04) with 6Y7O (Global RMSD=2.93)
No associated EC numbersNo evidence of orthology to BindingDB entries
Ortholog Group (OrthoMCL): OG6_102659
Most Similar Human Ortholog: Q9GZL7
TM-align score: 0.80 | RMSD: 3.43
Seq Identity: 0.17 | Length: 390 / 498
All Human Orthologs (OrthoMCL):
| Gene ID | Description |
|---|---|
| ENSG00000138442 | WD repeat domain 12 |
MalariaGEN Pf7 (worldwide samples) # unique SNV/indels:
Homozygous genotype calls only
| variant type | common | rare | doubleton | singleton |
|---|---|---|---|---|
| synonymous | 2 | 21 | 8 | 15 |
| disruptive | 12 | 50 | 34 | 48 |
| missense | 9 | 46 | 32 | 43 |
Any inclusion in genotype call
| variant type | common | rare | doubleton | singleton |
|---|---|---|---|---|
| synonymous | 5 | 35 | 11 | 21 |
| disruptive | 26 | 104 | 49 | 90 |
| missense | 16 | 93 | 44 | 60 |
PlasmoDB Total SNPs: 74
Non-coding: 45 | Synonymous: 22 | Nonsynonymous: 7 | Stop Codon: 0
Protein Length: 498 | Molecular Weight (kDa): 58.623
UniProt ID(s): C6KTE0
PDB ID(s): None
Isoelectric Point: 4.78
Protein Domain Annotations:
| Source | Family ID | Description |
|---|---|---|
| InterPro | IPR001680 | WD40 repeat |
| InterPro | IPR012972 | NLE |
| InterPro | IPR036322 | WD40-repeat-containing domain superfamily |
| PFam | PF00400 | WD40 repeat |
| PFam | PF08154 | NLE |
| Superfamily | SSF50978 | WD40-repeat-containing domain superfamily |
| PMID | Title | Authors | DOI/Link |
|---|---|---|---|
| 12368867 | Sequence of Plasmodium falciparum chromosomes 1, 3-9 and 13. | Hall N, Pain A, ..., Barrell BG | 10.1038/nature01095 |
| 18448671 | Interactions among Ytm1, Erb1, and Nop7 required for assembly of theNop7-subcomplex in yeast preribosomes | Tang L, Sahasranaman A, ..., Woolford JL Jr | 10.1091/mbc.e07-12-1281 |
| 11009604 | Actomyosin regulatory properties of yeast tropomyosin are dependent uponN-terminal modification | Maytum R, Geeves MA, Konrad M | 10.1021/bi000977g |
| 18006493 | Ultra short yeast tropomyosins show novel myosin regulation | Maytum R, Hatch V, ..., Geeves MA | 10.1074/jbc.M708593200 |
| 26476442 | The structure of Erb1-Ytm1 complex reveals the functional importance of ahigh-affinity binding between two beta-propellers during the assembly of largeribosomal subunits in eukaryotes | Wegrecki M, Rodriguez-Galan O, de la Cruz J, Bravo J | 10.1093/nar/gkv1043 |
| 25880847 | The carboxy-terminal domain of Erb1 is a seven-bladed ss-propeller that binds RNA | Wegrecki M, Neira JL, Bravo J | 10.1371/journal.pone.0123463 |
| 34540895 | Peptides Targeting the Interaction Between Erb1 and Ytm1 Ribosome AssemblyFactors | Orea-Ordonez L, Masia S, Bravo J | 10.3389/fmolb.2021.718941 |
| 26657628 | Concerted removal of the Erb1-Ytm1 complex in ribosome biogenesis relies on anelaborate interface | Thoms M, Ahmed YL, ..., Sinning I | 10.1093/nar/gkv1365 |
| 16287855 | Ytm1, Nop7, and Erb1 form a complex necessary for maturation of yeast 66Spreribosomes | Miles TD, Jakovljevic J, ..., Woolford JL Jr | 10.1128/MCB.25.23.10419-10432.2005 |
| 31296859 | Crystal structures of Rea1-MIDAS bound to its ribosome assembly factor ligands resembling integrin-ligand-type complexes | Ahmed YL, Thoms M, ..., Hurt E | 10.1038/s41467-019-10922-6 |