PF3D7_1018600

Genome location: Pf3D7_10_v3:737,590..745,840(-)

Genome classification: Core

Function and Localization

Product Description: tRNA wybutosine-synthesizing protein, putative

SignalP Peptide: N/A

# Transmembrane Domains: 0

EC Numbers: 2.1.1.- (Methyltransferases.);2.1.1.282 (tRNA(Phe) 7-((3-amino-3-carboxypropyl)-4-demethylwyosine(37)-N(4))-methyltransferase);2.5.1.114 (tRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase)

Curated GO (PlasmoDB):

Type	GO Term	Name
Component	GO:0005686	U2 snRNP
Component	GO:0071011	precatalytic spliceosome
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	expressed	N/A	N/A
Ring	expressed	0.79	0.65
Trophozoite	expressed	0.59	0.68
Schizont	expressed	0.44	0.74
Gametocyte	expressed	0.85	0.56

More info:

Resistome Mutations

Old (Pf3D7v3) Gene ID: PF3D7_1018600

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: Mutable in CDS

MIS: 1 | MFS: -0.781 | #Insertions: 6

PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_0502800)

Relative Growth Rate: 0.04 ± 0.06
Confidence: 7.05

RMgmDB ABS Phenotype: N/A

More info: PhenoPlasm Link

Binding Evidence

AlphaFill Uniprot ID: Q8IJL6

"Best" AlphaFill ligand hit: PQJ (fos-choline-14, Local RMSD=1.95) with 6U49 (Global RMSD=21.02)

BRENDA EC Inhibitors:

EC #	Name	EC Inhibitors
2.1.1.-	Ex: homocysteine S-methyltransferase	EDTACTABNickelA9145CtylosintacrineTween 80FTI-2628macrocinadenosineRelomycinphosphate...
2.1.1.282	tRNAPhe 7-[(3-amino-3-carboxypropyl)-4-demethylwyosine37-N4]-methyltransferase	No BRENDA inhibitors
2.5.1.114	tRNAPhe (4-demethylwyosine37-C7) aminocarboxypropyltransferase	No BRENDA inhibitors

No evidence of orthology to BindingDB entries

Orthology Information

Ortholog Group (OrthoMCL): OG6_104709

Most Similar Human Ortholog: Q53H54

TM-align score: 0.65 | RMSD: 3.93

Seq Identity: 0.25 | Length: 343 / 1904

All Human Orthologs (OrthoMCL):

Gene ID	Description
ENSG00000183665	tRNA methyltransferase 12 homolog

Genetic Variation

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

Homozygous genotype calls only

variant type	common	rare	doubleton	singleton
synonymous	17	88	57	132
disruptive	73	300	181	390
missense	40	235	152	326

Any inclusion in genotype call

variant type	common	rare	doubleton	singleton
synonymous	31	186	84	153
disruptive	167	684	286	559
missense	78	503	227	391

PlasmoDB Total SNPs: 461

Non-coding: 185 | Synonymous: 139 | Nonsynonymous: 133 | Stop Codon: 4

Protein Information

Protein Length: 1904 | Molecular Weight (kDa): 227.123

UniProt ID(s): Q8IJL6

PDB ID(s): None

Isoelectric Point: 9.86

Protein Domain Annotations:

Source	Family ID	Description
InterPro	IPR003827	tRNA wybutosine-synthesizing protein
InterPro	IPR011043	Galactose oxidase/kelch, beta-propeller
InterPro	IPR029063	S-adenosyl-L-methionine-dependent methyltransferase
InterPro	IPR030382	SAM-dependent methyltransferase TRM5/TYW2-type
InterPro	IPR036602	tRNA wybutosine-synthesizing-like superfamily
PFam	PF02475	SAM-dependent methyltransferase TRM5/TYW2-type
PFam	PF02676	tRNA wybutosine-synthesizing protein
PFam	PF13418
PFam	PF13964
Superfamily	SSF111278	tRNA wybutosine-synthesizing-like superfamily
Superfamily	SSF50965	Galactose oxidase/kelch, beta-propeller
Superfamily	SSF53335	S-adenosyl-L-methionine-dependent methyltransferase