About Gene List

PF3D7_1308200 (cpsSII)

Genome location: Pf3D7_13_v3:360,703..371,091(-)

Genome classification: Core

Function and Localization

Product Description: carbamoyl phosphate synthetase

SignalP Peptide: N/A

# Transmembrane Domains: 0

EC Numbers: 6.3.5.5 (Carbamoyl-phosphate synthase (glutamine-hydrolyzing))

Curated GO (PlasmoDB):

Type GO Term Name
Component GO:0005737 cytoplasm
Component GO:0005634 nucleus
Function GO:0004088 carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity
Process GO:0006207 'de novo' pyrimidine nucleobase biosynthetic process
Process GO:0006538 glutamate catabolic process
Process GO:0006541 glutamine metabolic process
Process GO:0006807 nitrogen compound metabolic process

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 expressed 2.32 0.19
Trophozoite expressed 1.96 0.21
Schizont expressed 0.53 0.72
Gametocyte possibly expressed 0.78 0.61

More info:

Resistome Mutations

Old (Pf3D7v3) Gene ID: PF3D7_1308200

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: 0.119 | MFS: -2.989 | #Insertions: 0

PlasmoGEM Phenotype: Essential (Pb ortholog: PBANKA_1406700)

  • Relative Growth Rate: 0.10 ± 0.21
  • Confidence: 1.00

RMgmDB ABS Phenotype: N/A

More info: PhenoPlasm Link

Binding Evidence

AlphaFill Uniprot ID: Q8IEN3

"Best" AlphaFill ligand hit: ADP (adenosine-5'-diphosphate, Local RMSD=0.41) with 5DOU (Global RMSD=3.98)

BRENDA EC Inhibitors:

EC # Name EC Inhibitors
6.3.5.5 carbamoyl-phosphate synthase (glutamine-hydrolysing) ADPUDPCTPUTPNEMUMPGlyIMPArgAladUTPdUDP...

Orthology to BindingDB Entries:

UniProt Protein Name Species Homology Source BindingDB Ligands
P27708 CAD protein Homo sapiens HOGENOM, OrthoDB CHEMBL170214CHEMBL168878CHEMBL141678CHEMBL29908...
P31327 Carbamoyl-phosphate synthase [ammonia], mitochondrial OrthoDB CHEMBL4649609CHEMBL4647565CHEMBL4634479CHEMBL4642964...

Orthology Information

Ortholog Group (OrthoMCL): OG6_100435

Most Similar Human Ortholog: P31327

TM-align score: 0.94 | RMSD: 1.89

Seq Identity: 0.47 | Length: 1443 / 2375

All Human Orthologs (OrthoMCL):

Gene ID Description
ENSG00000021826 carbamoyl-phosphate synthase 1
ENSG00000084774 carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase

Protein Information

Protein Length: 2375 | Molecular Weight (kDa): 273.438

UniProt ID(s): Q27732, Q8IEN3

PDB ID(s): None

Isoelectric Point: 6.58

Protein Domain Annotations:

Source Family ID Description
InterPro IPR002474 Carbamoyl-phosphate synthase small subunit, N-terminal domain
InterPro IPR005479 Carbamoyl-phosphate synthetase large subunit-like, ATP-binding domain
InterPro IPR005480 Carbamoyl-phosphate synthetase, large subunit oligomerisation domain
InterPro IPR005483 Carbamoyl-phosphate synthase large subunit, CPSase domain
InterPro IPR011607 Methylglyoxal synthase-like domain
InterPro IPR016185 Pre-ATP-grasp domain superfamily
InterPro IPR017926 Glutamine amidotransferase
InterPro IPR029062 Class I glutamine amidotransferase-like
InterPro IPR035686 Carbamoyl-phosphate synthase small subunit, GATase1 domain
InterPro IPR036480 Carbamoyl-phosphate synthase small subunit, N-terminal domain superfamily
InterPro IPR036897 Carbamoyl-phosphate synthetase, large subunit oligomerisation domain superfamily
InterPro IPR036914 Methylglyoxal synthase-like domain superfamily
PFam PF00117 Glutamine amidotransferase
PFam PF00988 Carbamoyl-phosphate synthase small subunit, N-terminal domain
PFam PF02142 Methylglyoxal synthase-like domain
PFam PF02786 Carbamoyl-phosphate synthetase large subunit-like, ATP-binding domain
PFam PF02787 Carbamoyl-phosphate synthetase, large subunit oligomerisation domain
Superfamily SSF48108 Carbamoyl-phosphate synthetase, large subunit oligomerisation domain superfamily
Superfamily SSF52021 Carbamoyl-phosphate synthase small subunit, N-terminal domain superfamily
Superfamily SSF52317 Class I glutamine amidotransferase-like
Superfamily SSF52335 Methylglyoxal synthase-like domain superfamily
Superfamily SSF52440 Pre-ATP-grasp domain superfamily
Superfamily SSF56059

Genetic Variation

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

Homozygous genotype calls only

variant type common rare doubleton singleton
synonymous 18 166 104 182
disruptive 42 242 134 330
missense 34 213 123 300

Any inclusion in genotype call

variant type common rare doubleton singleton
synonymous 40 330 119 157
disruptive 83 470 224 478
missense 63 414 188 372

PlasmoDB Total SNPs: 375

Non-coding: 219 | Synonymous: 92 | Nonsynonymous: 62 | Stop Codon: 2

Associated Publications

PMID Title Authors DOI/Link
16267556 A protein interaction network of the malaria parasite Plasmodium falciparum. LaCount DJ, Vignali M, ..., Hughes RE 10.1038/nature04104
23181666 Organellar proteomics reveals hundreds of novel nuclear proteins in the malariaparasite Plasmodium falciparum. Oehring SC, Woodcroft BJ, ..., Voss TS 10.1186/gb-2012-13-11-r108