PF3D7_0411900

Genome location: Pf3D7_04_v3:527,408..535,614(-)

Genome classification: Core

Function and Localization

Product Description: DNA polymerase alpha catalytic subunit A

SignalP Peptide: N/A

# Transmembrane Domains: 0

EC Numbers: 2.7.7.7 (DNA-directed DNA polymerase)

Curated GO (PlasmoDB):

Type	GO Term	Name
Component	GO:0005658	alpha DNA polymerase:primase complex
Function	GO:0008408	3'-5' exonuclease activity
Function	GO:0003688	DNA replication origin binding
Function	GO:0003887	DNA-directed DNA polymerase activity
Function	GO:0003682	chromatin binding
Function	GO:0017076	purine nucleotide binding
Function	GO:0019103	pyrimidine nucleotide binding
Function	GO:0003697	single-stranded DNA binding
Process	GO:0006260	DNA replication
Process	GO:0006273	lagging strand elongation
Process	GO:0006272	leading strand elongation
Process	GO:1902975	mitotic DNA replication initiation

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	0.21	0.90
Trophozoite	possibly expressed	1.36	0.39
Schizont	expressed	0.99	0.54
Gametocyte	not expressed	1.40	0.38

More info:

Resistome Mutations

Old (Pf3D7v3) Gene ID: PF3D7_0411900

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: 0.13 | MFS: -2.963 | #Insertions: 0

PlasmoGEM Phenotype: N/A

RMgmDB ABS Phenotype: N/A

More info: PhenoPlasm Link

Binding Evidence

AlphaFill Uniprot ID: Q9U0H1

"Best" AlphaFill ligand hit: TTP (thymidine-5'-triphosphate, Local RMSD=0.15) with 7B0F (Global RMSD=4.94)

BRENDA EC Inhibitors:

EC #	Name	EC Inhibitors
2.7.7.7	DNA-directed DNA polymerase	KClEDTANH4+dATPNH4ClddTTPMK886UracilalliinsucroseethanolAllicin...

Orthology to BindingDB Entries:

UniProt	Protein Name	Species	Homology Source	BindingDB Ligands
P28340	DNA polymerase delta catalytic subunit		OrthoDB	Combivir

Orthology Information

Ortholog Group (OrthoMCL): OG6_102343

Most Similar Human Ortholog: P09884

TM-align score: 0.70 | RMSD: 4.91

Seq Identity: 0.24 | Length: 1139 / 1912

All Human Orthologs (OrthoMCL):

Gene ID	Description
ENSG00000101868	DNA polymerase alpha 1, catalytic subunit

Protein Information

Protein Length: 1912 | Molecular Weight (kDa): 225.401

UniProt ID(s): Q9BHN0, Q9TX75, Q9U0H1

PDB ID(s): None

Isoelectric Point: 8.42

Protein Domain Annotations:

Source	Family ID	Description
InterPro	IPR006134	DNA-directed DNA polymerase, family B, multifunctional domain
InterPro	IPR006172	DNA-directed DNA polymerase, family B
InterPro	IPR012337	Ribonuclease H-like superfamily
InterPro	IPR017964	DNA-directed DNA polymerase, family B, conserved site
InterPro	IPR043502	DNA/RNA polymerase superfamily
PFam	PF00136	DNA-directed DNA polymerase, family B, multifunctional domain
Superfamily	SSF53098	Ribonuclease H-like superfamily
Superfamily	SSF56672	DNA/RNA polymerase superfamily

Genetic Variation

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

Homozygous genotype calls only

variant type	common	rare	doubleton	singleton
synonymous	41	93	34	116
disruptive	74	168	86	244
missense	26	101	73	187

Any inclusion in genotype call

variant type	common	rare	doubleton	singleton
synonymous	64	138	70	129
disruptive	135	330	169	432
missense	45	219	140	291

PlasmoDB Total SNPs: 432

Non-coding: 234 | Synonymous: 153 | Nonsynonymous: 43 | Stop Codon: 2