PF3D7_1355300 (SET6)

Genome location: Pf3D7_13_v3:2,195,099..2,197,551(+)

Genome classification: Core

Function and Localization

Product Description: histone-lysine N-methyltransferase, putative

SignalP Peptide: N/A

# Transmembrane Domains: 0

EC Numbers: 2.1.1.43 (Transferred entry: 2.1.1.354)

Curated GO (PlasmoDB):

Type	GO Term	Name
Component	GO:0034399	nuclear periphery
Component	GO:0005634	nucleus
Function	GO:0018024	histone-lysine N-methyltransferase activity
Process	GO:0034968	histone lysine methylation

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	0.24	0.88
Trophozoite	not expressed	0.15	0.90
Schizont	not expressed	0.03	0.98
Gametocyte	not expressed	0.17	0.90

More info:

Resistome Mutations

Old (Pf3D7v3) Gene ID: PF3D7_1355300

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: 0.131 | MFS: -3.323 | #Insertions: 0

PlasmoGEM Phenotype: Slow (Pb ortholog: PBANKA_1131800)

Relative Growth Rate: 0.78 ± 0.09
Confidence: 6.25

RMgmDB ABS Phenotype: Different from wild type (Pb ortholog: PBANKA_1131800)

Modification: Disrupted | RMgm-3096

More info: PhenoPlasm Link

Binding Evidence

AlphaFill Uniprot ID: Q8IDE8

"Best" AlphaFill ligand hit: BU3 ((r,r)-2,3-butanediol, Local RMSD=0.07) with 5KJN (Global RMSD=2.77)

BRENDA EC Inhibitors:

EC #	Name	EC Inhibitors
2.1.1.43	histone-lysine N-methyltransferase	BRENDA SOAP query unsuccessful

Orthology to BindingDB Entries:

UniProt	Protein Name	Species	Homology Source	BindingDB Ligands
Q9NRG4	N-lysine methyltransferase SMYD2		OrthoDB	CHEMBL3818083CHEMBL3819277US10023539, Example 1US10023539, Example 2...
Q9H7B4	Histone-lysine N-methyltransferase SMYD3		OrthoDB	US10106510, Compound 1US10106510, Compound 2US10106510, Compound 3US10106510, Compound 4...

Orthology Information

Ortholog Group (OrthoMCL): OG6_101699

Most Similar Human Ortholog: Q9H7B4

TM-align score: 0.85 | RMSD: 3.09

Seq Identity: 0.23 | Length: 406 / 509

All Human Orthologs (OrthoMCL):

Gene ID	Description
ENSG00000143499	SET and MYND domain containing 2
ENSG00000185420	SET and MYND domain containing 3

Protein Information

Protein Length: 509 | Molecular Weight (kDa): 60.023

UniProt ID(s): Q8IDE8

PDB ID(s): None

Isoelectric Point: 8.8

Protein Domain Annotations:

Source	Family ID	Description
InterPro	IPR001214	SET domain
InterPro	IPR002893	Zinc finger, MYND-type
PFam	PF00856	SET domain
PFam	PF01753	Zinc finger, MYND-type
Superfamily	SSF144232	N/A
Superfamily	SSF82199

Genetic Variation

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

Homozygous genotype calls only

variant type	common	rare	doubleton	singleton
synonymous	5	19	15	26
disruptive	0	10	10	30
missense	0	10	9	26

Any inclusion in genotype call

variant type	common	rare	doubleton	singleton
synonymous	5	62	20	29
disruptive	3	50	29	95
missense	0	36	22	51

PlasmoDB Total SNPs: 152

Non-coding: 126 | Synonymous: 24 | Nonsynonymous: 2 | Stop Codon: 0