Product Description: DNA repair protein RAD2, putative
SignalP Peptide: N/A
# Transmembrane Domains: 0
EC Numbers: 4.2.99.18 (DNA-(apurinic or apyrimidinic site) lyase)
Curated GO (PlasmoDB):
| Type | GO Term | Name |
|---|---|---|
| Component | GO:0000781 | chromosome, telomeric region |
| Component | GO:0000112 | nucleotide-excision repair factor 3 complex |
| Function | GO:0017108 | 5'-flap endonuclease activity |
| Function | GO:0003684 | damaged DNA binding |
| Function | GO:0004519 | endonuclease activity |
| Function | GO:0048256 | flap endonuclease activity |
| Function | GO:0000014 | single-stranded DNA endodeoxyribonuclease activity |
| Process | GO:0006281 | DNA repair |
| Process | GO:0006295 | nucleotide-excision repair, DNA incision, 3'-to lesion |
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 | expressed | 0.57 | 0.76 |
| Trophozoite | expressed | 0.53 | 0.69 |
| Schizont | expressed | 0.58 | 0.68 |
| Gametocyte | expressed | 0.53 | 0.70 |
More info:
Old (Pf3D7v3) Gene ID: PF3D7_0206000
Resistome Missense Mutations: None
Resistome Compounds with Missense Mutations: None
Resistome # Samples with Disruptive Mutations: 0 (0 missense, 0 "interesting" missense)
Zhang Phenotype: Mutable in CDS
MIS: 1 | MFS: -2.445 | #Insertions: 2
PlasmoGEM Phenotype: Dispensable (Pb ortholog: PBANKA_0303700)
RMgmDB ABS Phenotype: Different from wild type (Pb ortholog: PBANKA_0303700)
Modification: Disrupted | RMgm-1753
More info: PhenoPlasm Link
AlphaFill Uniprot ID: O96154
"Best" AlphaFill ligand hit: CDP (cytidine-5'-diphosphate, Local RMSD=19.71) with 1ORR (Global RMSD=20.53)
BRENDA EC Inhibitors:
| EC # | Name | EC Inhibitors |
|---|---|---|
| 4.2.99.18 | DNA-(apurinic or apyrimidinic site) lyase | ATPAMPKClCMPUMPP53EDTAdCMPdTMPdAMPdGMPATCA... |
Orthology to BindingDB Entries:
| UniProt | Protein Name | Species | Homology Source | BindingDB Ligands |
|---|---|---|---|---|
| P28715 | DNA excision repair protein ERCC-5 | Homo sapiens | OrthoDB | US11584755, Example 1US11584755, Example 2US11584755, Example 3US11584755, Example 5... |
Ortholog Group (OrthoMCL): OG6_101242
Most Similar Human Ortholog: A0A494C113
TM-align score: 0.73 | RMSD: 2.94
Seq Identity: 0.25 | Length: 122 / 1516
All Human Orthologs (OrthoMCL):
| Gene ID | Description |
|---|---|
| ENSG00000134897 | basic, immunoglobulin-like variable motif containing |
| ENSG00000134899 | ERCC excision repair 5, endonuclease |
| ENSG00000270181 | BIVM-ERCC5 readthrough |
Protein Length: 1516 | Molecular Weight (kDa): 178.731
UniProt ID(s): O96154
PDB ID(s): None
Isoelectric Point: 5.14
Protein Domain Annotations:
| Source | Family ID | Description |
|---|---|---|
| InterPro | IPR006084 | XPG/Rad2 endonuclease |
| InterPro | IPR006085 | XPG N-terminal |
| InterPro | IPR006086 | XPG-I domain |
| InterPro | IPR008918 | Helix-hairpin-helix motif, class 2 |
| InterPro | IPR019974 | XPG conserved site |
| InterPro | IPR029060 | PIN-like domain superfamily |
| InterPro | IPR036279 | 5'-3' exonuclease, C-terminal domain superfamily |
| PFam | PF00752 | XPG N-terminal |
| PFam | PF00867 | XPG-I domain |
| Superfamily | SSF47807 | 5'-3' exonuclease, C-terminal domain superfamily |
| Superfamily | SSF88723 | PIN-like domain superfamily |
MalariaGEN Pf7 (worldwide samples) # unique SNV/indels:
Homozygous genotype calls only
| variant type | common | rare | doubleton | singleton |
|---|---|---|---|---|
| synonymous | 23 | 90 | 33 | 87 |
| disruptive | 59 | 282 | 121 | 286 |
| missense | 36 | 223 | 113 | 243 |
Any inclusion in genotype call
| variant type | common | rare | doubleton | singleton |
|---|---|---|---|---|
| synonymous | 36 | 155 | 57 | 105 |
| disruptive | 128 | 488 | 186 | 360 |
| missense | 75 | 397 | 156 | 275 |
PlasmoDB Total SNPs: 269
Non-coding: 100 | Synonymous: 98 | Nonsynonymous: 71 | Stop Codon: 0
| 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 |
| 28376558 | Pf AP2Tel, harbouring a non-canonical D NA-binding A P2 domain, binds to Plasmodiumfalciparum telomeres | Sierra-Miranda M, Vembar SS, ..., Hernandez-Rivas R | 10.1111/cmi.12742 |