About Gene List

PF3D7_0614800 (NTHL1)

Genome location: Pf3D7_06_v3:615,060..617,043(-)

Genome classification: Core

Function and Localization

Product Description: endonuclease III-like protein 1, putative

SignalP Peptide: N/A

# Transmembrane Domains: 0

EC Numbers: 3.2.2.- (Hydrolyzing N-glycosyl compounds.);4.2.99.18 (DNA-(apurinic or apyrimidinic site) lyase)

Curated GO (PlasmoDB):

Type GO Term Name
Component GO:0005634 nucleus
Function GO:0003906 DNA-(apurinic or apyrimidinic site) endonuclease activity
Function GO:0004519 endonuclease activity
Function GO:0000703 oxidized pyrimidine nucleobase lesion DNA N-glycosylase activity
Process GO:0006281 DNA repair
Process GO:0006285 base-excision repair, AP site formation
Process GO:0006296 nucleotide-excision repair, DNA incision, 5'-to lesion

Expression by stage (LR - Le Roch et al., and MCA - Malaria Cell Atlas):

Stage LR class MCA mean MCA prop. zeros
Sporozoite possibly expressed N/A N/A
Ring possibly expressed 0.14 0.93
Trophozoite expressed 0.66 0.64
Schizont expressed 0.19 0.87
Gametocyte expressed 0.49 0.72

More info:

Resistome Mutations

Old (Pf3D7v3) Gene ID: PF3D7_0614800

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: Mutable in CDS

MIS: 0.997 | MFS: -2.991 | #Insertions: 2

PlasmoGEM Phenotype: N/A

RMgmDB ABS Phenotype: N/A

More info: PhenoPlasm Link

Binding Evidence

AlphaFill Uniprot ID: C6KSY9

"Best" AlphaFill ligand hit: MBO (mercuribenzoic acid, Local RMSD=0.63) with 2JHN (Global RMSD=8.20)

BRENDA EC Inhibitors:

EC # Name EC Inhibitors
3.2.2.- Ex: pyrimidine-5'-nucleotide nucleosidase KClGMPNaFKCNATPAMPCTPDNAEDTANAD+NADHdCMP...
4.2.99.18 DNA-(apurinic or apyrimidinic site) lyase ATPAMPKClCMPUMPP53EDTAdCMPdTMPdAMPdGMPATCA...

No evidence of orthology to BindingDB entries

Orthology Information

Ortholog Group (OrthoMCL): OG6_100563

Most Similar Human Ortholog: A0A494BZZ6

TM-align score: 0.95 | RMSD: 1.06

Seq Identity: 0.45 | Length: 205 / 437

All Human Orthologs (OrthoMCL):

Gene ID Description
ENSG00000065057 nth like DNA glycosylase 1

Genetic Variation

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

Homozygous genotype calls only

variant type common rare doubleton singleton
synonymous 1 17 10 27
disruptive 27 50 33 85
missense 13 38 27 68

Any inclusion in genotype call

variant type common rare doubleton singleton
synonymous 3 31 18 33
disruptive 42 126 60 129
missense 22 84 43 94

PlasmoDB Total SNPs: 118

Non-coding: 62 | Synonymous: 25 | Nonsynonymous: 31 | Stop Codon: 0

Protein Information

Protein Length: 437 | Molecular Weight (kDa): 51.539

UniProt ID(s): C6KSY9

PDB ID(s): None

Isoelectric Point: 9.95

Protein Domain Annotations:

Source Family ID Description
InterPro IPR000445 Helix-hairpin-helix motif
InterPro IPR003265 HhH-GPD domain
InterPro IPR003583 Helix-hairpin-helix DNA-binding motif, class 1
InterPro IPR003651 Endonuclease III-like, iron-sulphur cluster loop motif
InterPro IPR004035 Endonuclease III, iron-sulphur binding site
InterPro IPR004036 Endonuclease III-like, conserved site-2
InterPro IPR011257 DNA glycosylase
InterPro IPR030841 Endonuclease III-like protein 1
PFam PF00633 Helix-hairpin-helix motif
PFam PF00730 HhH-GPD domain
Superfamily SSF48150 DNA glycosylase

Associated Publications

PMID Title Authors DOI/Link
12368867 Sequence of Plasmodium falciparum chromosomes 1, 3-9 and 13. Hall N, Pain A, ..., Barrell BG 10.1038/nature01095