PF3D7_0203900

Genome location: Pf3D7_02_v3:176,370..178,737(+)

Genome classification: Core

Function and Localization

Product Description: 5'-3' exonuclease, putative

SignalP Peptide: MNKSIYIILLCVKYFLIYSKA

# Transmembrane Domains: 0

EC Numbers: 2.7.7.7 (DNA-directed DNA polymerase);3.1.16.1 (Spleen exonuclease)

Curated GO (PlasmoDB):

Type	GO Term	Name
Component	GO:0020011	apicoplast
Function	GO:0008409	5'-3' exonuclease activity
Function	GO:0003677	DNA binding

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	0.07	0.97
Trophozoite	expressed	0.58	0.67
Schizont	expressed	0.07	0.96
Gametocyte	possibly expressed	0.52	0.70

More info:

Resistome Mutations

Old (Pf3D7v3) Gene ID: PF3D7_0203900

Resistome Missense Mutations: None

Resistome Compounds with Missense Mutations: None

Resistome # Samples with Disruptive Mutations: 3 (0 missense, 0 "interesting" missense)

Essentiality (ABS)

Zhang Phenotype: Non - Mutable in CDS

MIS: 0.315 | MFS: -2.642 | #Insertions: 0

PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_1124200)

Relative Growth Rate: 0.10 ± 0.08
Confidence: 6.35

RMgmDB ABS Phenotype: Different from wild type (Pb ortholog: PBANKA_0301700)

Modification: Disrupted | RMgm-1744

More info: PhenoPlasm Link

Binding Evidence

AlphaFill Uniprot ID: O96139

"Best" AlphaFill ligand hit: No AlphaFill hits

BRENDA EC Inhibitors:

EC #	Name	EC Inhibitors
2.7.7.7	DNA-directed DNA polymerase	KClEDTANH4+dATPNH4ClddTTPMK886UracilalliinsucroseethanolAllicin...
3.1.16.1	spleen exonuclease	ATPKClEDTARNAiheparinarseniteATPgammaSUDP-glucosePentamidineacetylationSP-ATPalphaSSP-CTPalphaS...

No evidence of orthology to BindingDB entries

Orthology Information

Ortholog Group (OrthoMCL): OG6_101669

Most Similar Human Ortholog: Q7Z5Q5

TM-align score: 0.21 | RMSD: 7.47

Seq Identity: 0.04 | Length: 191 / 577

All Human Orthologs (OrthoMCL):

Gene ID	Description
ENSG00000130997	DNA polymerase nu

Genetic Variation

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

Homozygous genotype calls only

variant type	common	rare	doubleton	singleton
synonymous	5	24	12	39
disruptive	45	104	40	97
missense	23	57	32	70

Any inclusion in genotype call

variant type	common	rare	doubleton	singleton
synonymous	10	47	29	25
disruptive	80	167	63	150
missense	34	110	43	92

PlasmoDB Total SNPs: 131

Non-coding: 53 | Synonymous: 40 | Nonsynonymous: 38 | Stop Codon: 0

Protein Information

Protein Length: 577 | Molecular Weight (kDa): 68.024

UniProt ID(s): O96139

PDB ID(s): None

Isoelectric Point: 7.16

Protein Domain Annotations:

Source	Family ID	Description
InterPro	IPR002298	DNA polymerase A
InterPro	IPR002421	5'-3' exonuclease
InterPro	IPR008918	Helix-hairpin-helix motif, class 2
InterPro	IPR020045	DNA polymerase I-like, H3TH domain
InterPro	IPR020046	5'-3' exonuclease, alpha-helical arch, N-terminal
InterPro	IPR029060	PIN-like domain superfamily
InterPro	IPR036279	5'-3' exonuclease, C-terminal domain superfamily
PFam	PF01367	DNA polymerase I-like, H3TH domain
PFam	PF02739	5'-3' exonuclease, alpha-helical arch, N-terminal
Superfamily	SSF47807	5'-3' exonuclease, C-terminal domain superfamily
Superfamily	SSF88723	PIN-like domain superfamily

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
30212465	Integrative proteomics and bioinformatic prediction enable a high-confidenceapicoplast proteome in malaria parasites.	Boucher MJ, Ghosh S, ..., Yeh E	10.1371/journal.pbio.2005895