About Gene List

PF3D7_1228500

Genome location: Pf3D7_12_v3:1,158,372..1,160,646(+)

Genome classification: Core

Function and Localization

Product Description: RNA pseudouridylate synthase, putative

SignalP Peptide: N/A

# Transmembrane Domains: 0

EC Numbers: 5.4.99.12 (tRNA pseudouridine(38-40) synthase)

Curated GO (PlasmoDB): None

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 not expressed 0.06 0.97
Trophozoite expressed 0.46 0.73
Schizont possibly expressed 0.53 0.68
Gametocyte not expressed 0.22 0.87

More info:

Resistome Mutations

Old (Pf3D7v3) Gene ID: PF3D7_1228500

Resistome Missense Mutations: None

Resistome Compounds with Missense Mutations: None

Resistome # Samples with Disruptive Mutations: 0 (0 missense, 0 "interesting" missense)

Essentiality (ABS)

Zhang Phenotype: Non - Mutable in CDS

MIS: 0.134 | MFS: -3.241 | #Insertions: 0

PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_1443200)

  • Relative Growth Rate: 0.02 ± 0.05
  • Confidence: 7.23

RMgmDB ABS Phenotype: N/A

More info: PhenoPlasm Link

Binding Evidence

AlphaFill Uniprot ID: Q8I5D3

"Best" AlphaFill ligand hit: RHQ (rhodamine 6g, Local RMSD=26.03) with 3BR5 (Global RMSD=26.48)

BRENDA EC Inhibitors:

EC # Name EC Inhibitors
5.4.99.12 tRNA pseudouridine38-40 synthase tRNApoly(rA)npoly(rC)npoly(rG)npoly(rI)npoly(rU)niodoacetateCalf thymus DNADithionitrobenzoate5-fluorouracil tRNAPhep-chloromercuribenzoatefluorouracil-substituted tRNA

No evidence of orthology to BindingDB entries

Orthology Information

Ortholog Group (OrthoMCL): OG6_102367

No human ortholog(s)

Genetic Variation

MalariaGEN Pf7 (worldwide samples) # unique SNV/indels:

Homozygous genotype calls only

variant type common rare doubleton singleton
synonymous 3 15 11 32
disruptive 2 23 13 54
missense 2 22 13 49

Any inclusion in genotype call

variant type common rare doubleton singleton
synonymous 6 33 16 27
disruptive 8 62 33 75
missense 4 54 28 57

PlasmoDB Total SNPs: 130

Non-coding: 107 | Synonymous: 19 | Nonsynonymous: 4 | Stop Codon: 0

Protein Information

Protein Length: 409 | Molecular Weight (kDa): 48.366

UniProt ID(s): Q8I5D3

PDB ID(s): None

Isoelectric Point: 10.07

Protein Domain Annotations:

Source Family ID Description
InterPro IPR002942 RNA-binding S4 domain
InterPro IPR020103 Pseudouridine synthase, catalytic domain superfamily
PFam PF01479 RNA-binding S4 domain
Superfamily SSF55120 Pseudouridine synthase, catalytic domain superfamily
Superfamily SSF55174

Associated Publications

PMID Title Authors DOI/Link
12368864 Genome sequence of the human malaria parasite Plasmodium falciparum. Gardner MJ, Hall N, ..., Barrell B 10.1038/nature01097