PF3D7_0216000

Genome location: Pf3D7_02_v3:657,770..664,734(+)

Genome classification: Core

Function and Localization

Product Description: SNF2-like chromatin remodeling ATPase, putative

SignalP Peptide: N/A

# Transmembrane Domains: 0

EC Numbers: 3.6.4.13 (RNA helicase)

Curated GO (PlasmoDB):

Type	GO Term	Name
Component	GO:0016514	SWI/SNF complex
Component	GO:0005634	nucleus
Function	GO:0008094	ATP-dependent activity, acting on DNA
Function	GO:0003677	DNA binding
Function	GO:0003678	DNA helicase activity
Process	GO:0043044	ATP-dependent chromatin remodeling
Process	GO:0006338	chromatin remodeling
Process	GO:0045944	positive regulation of transcription by RNA polymerase II

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	0.04	0.98
Trophozoite	not expressed	0.21	0.88
Schizont	expressed	0.36	0.79
Gametocyte	expressed	1.99	0.28

More info:

Resistome Mutations

Old (Pf3D7v3) Gene ID: PF3D7_0216000

Resistome Missense Mutations: None

Resistome Compounds with Missense Mutations: None

Resistome # Samples with Disruptive Mutations: 2 (0 missense, 0 "interesting" missense)

Essentiality (ABS)

Zhang Phenotype: Mutable in CDS

MIS: 1 | MFS: -0.504 | #Insertions: 7

PlasmoGEM Phenotype: Dispensable (Pb ortholog: PBANKA_0312700)

Relative Growth Rate: 0.97 ± 0.08
Confidence: 6.54

RMgmDB ABS Phenotype: Not different from wild type (Pb ortholog: PBANKA_0312700)

Modification: Disrupted | RMgm-5375

More info: PhenoPlasm Link

Binding Evidence

AlphaFill Uniprot ID: O96239

"Best" AlphaFill ligand hit: KH2 (3-(1-methylpiperidinium-1-yl)propane-1-sulfonate, Local RMSD=0.14) with 5HZR (Global RMSD=13.40)

BRENDA EC Inhibitors:

EC #	Name	EC Inhibitors
3.6.4.13	RNA helicase	ATPADPUDPAMPGTPGDPUTPKClNEMCDPITPTDP...

Orthology to BindingDB Entries:

UniProt	Protein Name	Species	Homology Source	BindingDB Ligands
P51531	Probable global transcription activator SNF2L2	Homo sapiens	OrthoDB	MLS000554093MLS000578788MLS000765838MLS000332963...
P51532	Transcription activator BRG1	Homo sapiens	OrthoDB	US10308614, Example 1US10308614, Example 2US10308614, Example 31-(4-(3-amino-6-(2-...

Orthology Information

Ortholog Group (OrthoMCL): OG6_101122

Most Similar Human Ortholog: A0A2R8YFV8

TM-align score: 0.81 | RMSD: 3.21

Seq Identity: 0.48 | Length: 340 / 1997

All Human Orthologs (OrthoMCL):

Gene ID	Description
ENSG00000080503	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2
ENSG00000127616	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4

Protein Information

Protein Length: 1997 | Molecular Weight (kDa): 237.127

UniProt ID(s): O96239

PDB ID(s): None

Isoelectric Point: 7.28

Protein Domain Annotations:

Source	Family ID	Description
InterPro	IPR000330	SNF2-related, N-terminal domain
InterPro	IPR001650	Helicase, C-terminal
InterPro	IPR014001	Helicase superfamily 1/2, ATP-binding domain
InterPro	IPR027417	P-loop containing nucleoside triphosphate hydrolase
PFam	PF00176	SNF2-related, N-terminal domain
PFam	PF00271	Helicase, C-terminal
Superfamily	SSF52540	P-loop containing nucleoside triphosphate hydrolase

Genetic Variation

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

Homozygous genotype calls only

variant type	common	rare	doubleton	singleton
synonymous	9	70	40	81
disruptive	40	144	102	245
missense	23	110	81	200

Any inclusion in genotype call

variant type	common	rare	doubleton	singleton
synonymous	19	123	68	116
disruptive	103	313	154	400
missense	48	245	117	272

PlasmoDB Total SNPs: 318

Non-coding: 90 | Synonymous: 142 | Nonsynonymous: 85 | Stop Codon: 1

PMID	Title	Authors	DOI/Link
9804551	Chromosome 2 sequence of the human malaria parasite Plasmodium falciparum.	Gardner MJ, Tettelin H, ..., Hoffman SL	10.1126/science.282.5391.1126
12368864	Genome sequence of the human malaria parasite Plasmodium falciparum.	Gardner MJ, Hall N, ..., Barrell B	10.1038/nature01097