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GeneE
25 sources retrieved Β· Most recent: April 2026 Β· Index updated 14 days ago
β“˜GeneE is for informational purposes only. It is not a substitute for professional medical advice, diagnosis, or treatment.
CPS1
carbamoyl-phosphate synthase 1
Chromosome 2 Β· 2q34
NCBI Gene: 1373Ensembl: ENSG00000021826.19HGNC: HGNC:2323UniProt: P31327
170PubMed Papers
21Diseases
1Drugs
401Pathogenic Variants
RESEARCH IMPACT
TrendingVariant-Rich
CLINICAL
FDA Approved TargetOMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
homocysteine metabolic processnucleolusmitochondrionmetal ion bindingcarbamoyl phosphate synthetase I deficiency diseasepulmonary arterial hypertensionAbnormality of the skeletal systemHyperammonemia
✦AI Summary

CPS1 (carbamoyl-phosphate synthase 1) is the rate-limiting mitochondrial enzyme of the urea cycle that catalyzes ammonia detoxification by converting ammonia and bicarbonate to carbamoyl phosphate 1. In normal hepatocytes, CPS1 plays a critical role in removing excess ammonia from cells, preventing ammonia-induced toxicity 1. Beyond canonical ammonia metabolism, CPS1 maintains pyrimidine biosynthesis through an unconventional nitrogen pathway, sustaining DNA synthesis and cell cycle progression 2. Mutations in CPS1 cause severe carbamoyl-phosphate synthetase 1 deficiency, a rare genetic disorder with approximately 50% early infant mortality, characterized by hyperammonemia and neurological complications 3. In cancer biology, CPS1 exhibits context-dependent roles: it is downregulated in hepatocellular carcinoma (HCC) where low expression correlates with poor prognosis, yet functions as a metabolic switch balancing cell proliferation and metastasis by regulating aspartate levels 4. The tumor suppressor p53 represses CPS1 transcription to suppress ureagenesis and accumulate ammonia, which inhibits polyamine biosynthesis and cell proliferation 5. Recent advances include successful in vivo base-editing therapy correcting CPS1 mutations in a neonatal patient, demonstrating therapeutic potential for this severe genetic disease 3.

Sources cited
1
CPS1 controls ammonia detoxification in the urea cycle and regulates ammonia production through glutamine metabolism
PMID: 25700560
2
CPS1 maintains pyrimidine pools and enables unconventional nitrogen flow into pyrimidine biosynthesis for DNA synthesis
PMID: 28538732
3
CPS1 deficiency is a severe genetic disease with ~50% early infant mortality; successfully treated with base-editing therapy
PMID: 40373211
4
CPS1 is downregulated in HCC and functions as metabolic switch regulating aspartate levels to balance proliferation and metastasis
PMID: 39387452
5
p53 represses CPS1 transcription to suppress ammonia elimination and inhibit polyamine biosynthesis and cell proliferation
PMID: 30842655
Disease Associationsβ“˜21
carbamoyl phosphate synthetase I deficiency diseaseOpen Targets
0.87Strong
pulmonary arterial hypertensionOpen Targets
0.69Moderate
Abnormality of the skeletal systemOpen Targets
0.55Moderate
HyperammonemiaOpen Targets
0.51Moderate
genetic disorderOpen Targets
0.49Moderate
kidney failureOpen Targets
0.47Moderate
macular telangiectasia type 2Open Targets
0.47Moderate
chronic kidney diseaseOpen Targets
0.47Moderate
inborn disorder of amino acid metabolismOpen Targets
0.46Moderate
osteoarthritis, kneeOpen Targets
0.43Moderate
HeadacheOpen Targets
0.43Moderate
goutOpen Targets
0.43Moderate
osteoarthritisOpen Targets
0.40Moderate
cholelithiasisOpen Targets
0.40Weak
Hyperammonemia due to N-acetylglutamate synthetase deficiencyOpen Targets
0.37Weak
propionic acidemiaOpen Targets
0.37Weak
PainOpen Targets
0.35Weak
headache disorderOpen Targets
0.35Weak
agingOpen Targets
0.34Weak
venous thromboembolismOpen Targets
0.34Weak
Carbamoyl phosphate synthetase 1 deficiencyUniProt
Pathogenic Variants401
NM_001875.5(CPS1):c.1529del (p.Gly510fs)Pathogenic
Congenital hyperammonemia, type I|Pulmonary hypertension, neonatal, susceptibility to
β˜…β˜…β˜†β˜†2026β†’ Residue 510
NM_001875.5(CPS1):c.2740G>C (p.Asp914His)Pathogenic
Congenital hyperammonemia, type I|Pulmonary hypertension, neonatal, susceptibility to|Pulmonary hypertension, neonatal, susceptibility to;Congenital hyperammonemia, type I
β˜…β˜…β˜†β˜†2026β†’ Residue 914
NM_001875.5(CPS1):c.3607T>C (p.Ser1203Pro)Pathogenic
Congenital hyperammonemia, type I|Pulmonary hypertension, neonatal, susceptibility to|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 1203
NM_001875.5(CPS1):c.2148T>A (p.Asn716Lys)Pathogenic
not provided|Congenital hyperammonemia, type I|CPS1-related disorder|Pulmonary hypertension, neonatal, susceptibility to|Inborn genetic diseases|Pulmonary hypertension, neonatal, susceptibility to;Congenital hyperammonemia, type I
β˜…β˜…β˜†β˜†2025β†’ Residue 716
NM_001875.5(CPS1):c.2525del (p.Glu842fs)Pathogenic
Congenital hyperammonemia, type I|Pulmonary hypertension, neonatal, susceptibility to
β˜…β˜…β˜†β˜†2025β†’ Residue 842
NM_001875.5(CPS1):c.3404+1G>APathogenic
Pulmonary hypertension, neonatal, susceptibility to|Pulmonary hypertension, neonatal, susceptibility to;Congenital hyperammonemia, type I|Congenital hyperammonemia, type I
β˜…β˜…β˜†β˜†2025
NM_001875.5(CPS1):c.1312G>C (p.Ala438Pro)Likely pathogenic
not provided|Congenital hyperammonemia, type I|Congenital hyperammonemia, type I;Pulmonary hypertension, neonatal, susceptibility to|Pulmonary hypertension, neonatal, susceptibility to
β˜…β˜…β˜†β˜†2025β†’ Residue 438
NM_001875.5(CPS1):c.3520C>T (p.Arg1174Ter)Pathogenic
Congenital hyperammonemia, type I|Pulmonary hypertension, neonatal, susceptibility to
β˜…β˜…β˜†β˜†2025β†’ Residue 1174
NM_001875.5(CPS1):c.4088_4099del (p.Leu1363_Ile1366del)Likely pathogenic
Congenital hyperammonemia, type I|Pulmonary hypertension, neonatal, susceptibility to
β˜…β˜…β˜†β˜†2025β†’ Residue 1363
NM_001875.5(CPS1):c.2407C>G (p.Arg803Gly)Pathogenic
Congenital hyperammonemia, type I|Congenital hyperammonemia, type I;Pulmonary hypertension, neonatal, susceptibility to|Pulmonary hypertension, neonatal, susceptibility to
β˜…β˜…β˜†β˜†2025β†’ Residue 803
NM_001875.5(CPS1):c.3559G>T (p.Val1187Phe)Likely pathogenic
Congenital hyperammonemia, type I|Pulmonary hypertension, neonatal, susceptibility to;Congenital hyperammonemia, type I
β˜…β˜…β˜†β˜†2025β†’ Residue 1187
NM_001875.5(CPS1):c.1363_1364del (p.Glu455fs)Pathogenic
Congenital hyperammonemia, type I
β˜…β˜…β˜†β˜†2025β†’ Residue 455
NM_001875.5(CPS1):c.1941_1944del (p.Cys648fs)Pathogenic
Pulmonary hypertension, neonatal, susceptibility to|Congenital hyperammonemia, type I
β˜…β˜…β˜†β˜†2025β†’ Residue 648
NM_001875.5(CPS1):c.3784C>T (p.Arg1262Ter)Pathogenic
Congenital hyperammonemia, type I|Pulmonary hypertension, neonatal, susceptibility to;Congenital hyperammonemia, type I|Pulmonary hypertension, neonatal, susceptibility to
β˜…β˜…β˜†β˜†2025β†’ Residue 1262
NM_001875.5(CPS1):c.1760G>T (p.Arg587Leu)Likely pathogenic
Congenital hyperammonemia, type I|Congenital hyperammonemia, type I;Pulmonary hypertension, neonatal, susceptibility to
β˜…β˜…β˜†β˜†2025β†’ Residue 587
NM_001875.5(CPS1):c.794C>T (p.Pro265Leu)Likely pathogenic
Congenital hyperammonemia, type I|Pulmonary hypertension, neonatal, susceptibility to
β˜…β˜…β˜†β˜†2025β†’ Residue 265
NM_001875.5(CPS1):c.1549+1G>APathogenic
Congenital hyperammonemia, type I
β˜…β˜…β˜†β˜†2025
NM_001875.5(CPS1):c.3337-1G>TPathogenic
Congenital hyperammonemia, type I|Pulmonary hypertension, neonatal, susceptibility to|Congenital hyperammonemia, type I;Pulmonary hypertension, neonatal, susceptibility to
β˜…β˜…β˜†β˜†2025
NM_001875.5(CPS1):c.2339G>A (p.Arg780His)Pathogenic
not provided|Congenital hyperammonemia, type I|Pulmonary hypertension, neonatal, susceptibility to
β˜…β˜…β˜†β˜†2025β†’ Residue 780
NM_001875.5(CPS1):c.1323dup (p.Asp442Ter)Pathogenic
Congenital hyperammonemia, type I
β˜…β˜…β˜†β˜†2025β†’ Residue 442
View on ClinVar β†—
Drug Targets1
CARGLUMIC ACIDApproved
Carbamoyl-phosphate synthase [ammonia], mitochondrial positive allosteric modulator
Hyperammonemia due to N-acetylglutamate synthetase deficiency
Related Genes
UMPSProtein interaction100%DPYDProtein interaction100%ARG1Protein interaction100%ASLProtein interaction100%OATProtein interaction99%GLUD2Protein interaction98%
Tissue Expression6 tissues
Liver
100%
Ovary
0%
Heart
0%
Brain
0%
Lung
0%
Bone Marrow
0%
Gene Interaction Network
Click a node to explore
CPS1UMPSDPYDARG1ASLOATGLUD2
PROTEIN STRUCTURE
Preparing viewer…
PDB6UEL Β· 1.90 Γ… Β· X-ray
View on RCSB β†—
Constraintβ“˜
LOEUFβ“˜
0.76LoF Tolerant
pLIβ“˜
0.00Tolerant
Observed/Expected LoF0.64 [0.54–0.76]
RankingsWhere CPS1 stands among ~20K protein-coding genes
  • #2,594of 20,598
    Most Researched170 Β· top quartile
  • #885of 1,025
    FDA-Approved Drug Targets1
  • #138of 5,498
    Most Pathogenic Variants401 Β· top 5%
  • #6,143of 17,882
    Most Constrained (LOEUF)0.76
Genes detectedCPS1
Sources retrieved25 papers
Response timeβ€”
πŸ“„ Sources
25β–Ό
1
Neoadjuvant and Adjuvant Pembrolizumab in Locally Advanced Head and Neck Cancer.
PMID: 40532178
N Engl J Med Β· 2025
1.00
2
Patient-Specific In Vivo Gene Editing to Treat a Rare Genetic Disease.
PMID: 40373211
N Engl J Med Β· 2025
0.90
3
Pembrolizumab plus Chemotherapy in Advanced Triple-Negative Breast Cancer.
PMID: 35857659
N Engl J Med Β· 2022
0.80
4
Comprehensive and Integrative Genomic Characterization of Hepatocellular Carcinoma.
PMID: 28622513
Cell Β· 2017
0.70
5
SIRT5 regulation of ammonia-induced autophagy and mitophagy.
PMID: 25700560
Autophagy Β· 2015
0.60