PF3D7_1438700

Genome location: Pf3D7_14_v3:1,564,541..1,568,049(+)

Genome classification: Core

Function and Localization

Product Description: DNA primase small subunit

SignalP Peptide: N/A

# Transmembrane Domains: 0

EC Numbers: 2.7.7.- (Nucleotidyltransferases.);2.7.7.6 (DNA-directed RNA polymerase)

Curated GO (PlasmoDB):

Type	GO Term	Name
Component	GO:0005658	alpha DNA polymerase:primase complex
Function	GO:0003896	DNA primase activity
Function	GO:0003723	RNA binding
Process	GO:0006269	DNA replication, synthesis of RNA primer

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	possibly expressed	0.05	0.97
Trophozoite	expressed	0.54	0.68
Schizont	expressed	0.18	0.88
Gametocyte	expressed	0.50	0.71

More info:

Resistome Mutations

Old (Pf3D7v3) Gene ID: PF3D7_1438700

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: 0.124 | MFS: -3.197 | #Insertions: 0

PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_1302600)

Relative Growth Rate: 0.10 ± 0.05
Confidence: 1.00

RMgmDB ABS Phenotype: N/A

More info: PhenoPlasm Link

Binding Evidence

AlphaFill Uniprot ID: Q7KQM1

"Best" AlphaFill ligand hit: UTP (uridine 5'-triphosphate, Local RMSD=0.46) with 4BPW (Global RMSD=2.13)

BRENDA EC Inhibitors:

EC #	Name	EC Inhibitors
2.7.7.-	Ex: 2-hydroxyethylphosphonate cytidylyltransferase	ADPAMPUTPKClNAD+NADP+NaAD+ppGpppppGppsuraminADPribosecisplatin...
2.7.7.6	DNA-directed RNA polymerase	BRENDA SOAP query unsuccessful

No evidence of orthology to BindingDB entries

Orthology Information

Ortholog Group (OrthoMCL): OG6_101221

Most Similar Human Ortholog: F8VNY2

TM-align score: 0.91 | RMSD: 1.79

Seq Identity: 0.40 | Length: 314 / 452

All Human Orthologs (OrthoMCL):

Gene ID	Description
ENSG00000198056	DNA primase subunit 1
ENSG00000285625	novel protein

Genetic Variation

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

Homozygous genotype calls only

variant type	common	rare	doubleton	singleton
synonymous	2	25	15	35
disruptive	1	6	14	38
missense	1	6	14	31

Any inclusion in genotype call

variant type	common	rare	doubleton	singleton
synonymous	6	51	24	39
disruptive	5	35	45	101
missense	1	23	37	83

PlasmoDB Total SNPs: 176

Non-coding: 158 | Synonymous: 14 | Nonsynonymous: 4 | Stop Codon: 0

Protein Information

Protein Length: 452 | Molecular Weight (kDa): 53.489

UniProt ID(s): A0A144A659, Q7KQM1

PDB ID(s): None

Isoelectric Point: 8.31

Protein Domain Annotations:

Source	Family ID	Description
InterPro	IPR002755	DNA primase, small subunit
InterPro	IPR014052	DNA primase, small subunit, eukaryotic/archaeal
PFam	PF01896	DNA primase, small subunit
Superfamily	SSF56747	N/A

PMID	Title	Authors	DOI/Link
8918794	Molecular cloning of a Plasmodium falciparum gene interrupted by 15 intronsencoding a functional primase 53 kDa subunit as demonstrated by expression in abaculovirus system.	Prasartkaew S, Zijlstra NM, ..., de Vries E	10.1093/nar/24.20.3934
12368864	Genome sequence of the human malaria parasite Plasmodium falciparum.	Gardner MJ, Hall N, ..., Barrell B	10.1038/nature01097
33906926	Functional Characterization of the m(6)A-Dependent Translational Modulator PfYTH	Sinha A, Baumgarten S, ..., Scherf A	10.1128/mBio.00661-21