Ammonia (YMDB00091)

Identification
YMDB IDYMDB00091
NameAmmonia
SpeciesSaccharomyces cerevisiae
StrainBaker's yeast
DescriptionAmmonia, also known as NH3 or amoniaco, belongs to the class of inorganic compounds known as homogeneous other non-metal compounds. These are inorganic non-metallic compounds in which the largest atom belongs to the class of 'other non-metals'. Ammonia is a very strong basic compound (based on its pKa). Ammonia exists in all living species, ranging from bacteria to humans. Ammonia is a potentially toxic compound.
Structure
Thumb
MOLSDFPDBSMILESInChI
Synonyms
  • Am-fol
  • Ammonia
  • Ammonia anhydrous
  • Ammonia gas
  • Ammonia solution
  • Ammonia water
  • Ammoniac [french]
  • Ammoniaca [italian]
  • Ammoniacum gummi
  • Ammoniak
  • Ammoniak [german]
  • Ammoniak kconzentrierter
  • Ammoniakgas
  • Ammonium ion
  • Amoniak [polish]
  • Anhydrous ammonia
  • Aromatic ammonia vaporole
  • Azane
  • Liquid ammonia
  • NH3
  • Nitro-sil
  • Primaeres amin
  • Sekundaeres amin
  • Spirit of hartshorn
  • Tertiaeres amin
  • [NH3]
  • Ammoniac
  • Amoniaco
  • R-717
  • Ammonia inhalant
  • Ammonia solution strong
  • Ammonia (CONC 20% or greater)
  • Ammonia solution strong (NF)
  • Ammonia water (JP15)
  • NH(3)
CAS number7664-41-7
WeightAverage: 17.0305
Monoisotopic: 17.026549101
InChI KeyQGZKDVFQNNGYKY-UHFFFAOYSA-N
InChIInChI=1S/H3N/h1H3
IUPAC Nameammonia
Traditional IUPAC Nameammonia
Chemical FormulaH3N
SMILES[H]N([H])[H]
Chemical Taxonomy
Description belongs to the class of inorganic compounds known as homogeneous other non-metal compounds. These are inorganic non-metallic compounds in which the largest atom belongs to the class of 'other non-metals'.
KingdomInorganic compounds
Super ClassHomogeneous non-metal compounds
ClassHomogeneous other non-metal compounds
Sub ClassNot Available
Direct ParentHomogeneous other non-metal compounds
Alternative ParentsNot Available
Substituents
  • Homogeneous other non metal
Molecular FrameworkNot Available
External Descriptors
Physical Properties
StateLiquid
Charge0
Melting point-77.7 °C
Experimental Properties
PropertyValueReference
Water Solubility482 mg/mL at 24 oC [DEAN,JA (1985)]PhysProp
LogPNot AvailablePhysProp
Predicted Properties
PropertyValueSource
logP-0.98ChemAxon
pKa (Strongest Basic)8.86ChemAxon
Physiological Charge1ChemAxon
Hydrogen Acceptor Count1ChemAxon
Hydrogen Donor Count1ChemAxon
Polar Surface Area13.59 ŲChemAxon
Rotatable Bond Count0ChemAxon
Refractivity15.51 m³·mol⁻¹ChemAxon
Polarizability1.99 ųChemAxon
Number of Rings0ChemAxon
Bioavailability1ChemAxon
Rule of FiveYesChemAxon
Ghose FilterYesChemAxon
Veber's RuleYesChemAxon
MDDR-like RuleYesChemAxon
Biological Properties
Cellular Locations
  • Cytoplasm, Extracellular
Organoleptic Properties
Flavour/OdourSource
AmmoniacalFDB003908
SMPDB Pathways
Nitrogen metabolismPW002504 ThumbThumb?image type=greyscaleThumb?image type=simple
One Carbon Pool by Folate IPW002468 ThumbThumb?image type=greyscaleThumb?image type=simple
Porphyrin MetabolismPW002462 ThumbThumb?image type=greyscaleThumb?image type=simple
Selenocompound metabolismPW002472 ThumbThumb?image type=greyscaleThumb?image type=simple
KEGG Pathways
Alanine, aspartate and glutamate metabolismec00250 Map00250
Arginine and proline metabolismec00330 Map00330
Cyanoamino acid metabolismec00460 Map00460
Glycine, serine and threonine metabolismec00260 Map00260
Nitrogen metabolismec00910 Map00910
SMPDB Reactions
Adenosine triphosphate + L-Aspartic acid + Ammonia → Adenosine monophosphate + L-Asparagine + Pyrophosphate
L-Aspartic acid + water + oxygen → Oxalacetic acid + Ammonia + Hydrogen peroxide
L-Aspartic acid → Fumaric acid + Ammonia
Selenocystathionine + water → Selenohomocysteine + Ammonia + Pyruvic acid
S-Aminomethyldihydrolipoylprotein; + Tetrahydrofolic acid ↔ 5,10-Methylene-THF + Ammonia + dihydrolipoylprotein
KEGG ReactionsNot Available
Concentrations
Intracellular ConcentrationsNot Available
Extracellular ConcentrationsNot Available
Spectra
Spectra
Spectrum TypeDescriptionSplash KeyView
Predicted GC-MSPredicted GC-MS Spectrum - GC-MS (Non-derivatized) - 70eV, Positivesplash10-014i-9000000000-92ab2d6b6fd9cfb23ac7JSpectraViewer
Predicted GC-MSPredicted GC-MS Spectrum - GC-MS (Non-derivatized) - 70eV, PositiveNot AvailableJSpectraViewer
Predicted GC-MSPredicted GC-MS Spectrum - GC-MS (Non-derivatized) - 70eV, PositiveNot AvailableJSpectraViewer
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 10V, Positivesplash10-014i-9000000000-88ae09421d46f7dea1c5JSpectraViewer
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 20V, Positivesplash10-014i-9000000000-88ae09421d46f7dea1c5JSpectraViewer
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 40V, Positivesplash10-014i-9000000000-88ae09421d46f7dea1c5JSpectraViewer
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 10V, Negativesplash10-014i-9000000000-5e750288766bc8c562ffJSpectraViewer
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 20V, Negativesplash10-014i-9000000000-5e750288766bc8c562ffJSpectraViewer
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 40V, Negativesplash10-014i-9000000000-5e750288766bc8c562ffJSpectraViewer
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 10V, Positivesplash10-014i-9000000000-4d3180e05bafd704562fJSpectraViewer
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 20V, Positivesplash10-014i-9000000000-4d3180e05bafd704562fJSpectraViewer
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 40V, Positivesplash10-014i-9000000000-4d3180e05bafd704562fJSpectraViewer
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 10V, Negativesplash10-014i-9000000000-e1d016c3d6effe2294d2JSpectraViewer
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 20V, Negativesplash10-014i-9000000000-e1d016c3d6effe2294d2JSpectraViewer
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - 40V, Negativesplash10-014i-9000000000-e1d016c3d6effe2294d2JSpectraViewer
MSMass Spectrum (Electron Ionization)splash10-014i-9000000000-e0a6e51ead158714099bJSpectraViewer | MoNA
References
References:
  • UniProt Consortium (2011). "Ongoing and future developments at the Universal Protein Resource." Nucleic Acids Res 39:D214-D219.21051339
  • Scheer, M., Grote, A., Chang, A., Schomburg, I., Munaretto, C., Rother, M., Sohngen, C., Stelzer, M., Thiele, J., Schomburg, D. (2011). "BRENDA, the enzyme information system in 2011." Nucleic Acids Res 39:D670-D676.21062828
  • ter Schure, E. G., van Riel, N. A., Verrips, C. T. (2000). "The role of ammonia metabolism in nitrogen catabolite repression in Saccharomyces cerevisiae." FEMS Microbiol Rev 24:67-83.10640599
  • Fonzi, W. A., Shanley, M., Opheim, D. J. (1979). "Relationship of glycolytic intermediates, glycolytic enzymes, and ammonia to glycogen metabolism during sporulation in the yeast Saccharomyces cerevisiae." J Bacteriol 137:285-294.368017
  • Castrillo, J. I., Zeef, L. A., Hoyle, D. C., Zhang, N., Hayes, A., Gardner, D. C., Cornell, M. J., Petty, J., Hakes, L., Wardleworth, L., Rash, B., Brown, M., Dunn, W. B., Broadhurst, D., O'Donoghue, K., Hester, S. S., Dunkley, T. P., Hart, S. R., Swainston, N., Li, P., Gaskell, S. J., Paton, N. W., Lilley, K. S., Kell, D. B., Oliver, S. G. (2007). "Growth control of the eukaryote cell: a systems biology study in yeast." J Biol 6:4.17439666
Synthesis Reference:Mohr, Rudolf. Ammonia separation from offgas obtained from melamine synthesis. U.S. (1971), 5 pp. CODEN: USXXAM US 3555784 19710119 CAN 77:50902 AN 1972:450902
External Links:
ResourceLink
CHEBI ID16134
HMDB IDHMDB00051
Pubchem Compound ID222
Kegg IDC00014
ChemSpider ID217
FOODB IDFDB003908
WikipediaAmmonia
BioCyc IDAMMONIA

Enzymes

Protein Details
1. CTP synthase 1
General function:
Involved in CTP synthase activity
Specific function:
Catalyzes the ATP-dependent amination of UTP to CTP with either L-glutamine or ammonia as the source of nitrogen
Gene Name:
URA7
Uniprot ID:
P28274
Molecular weight:
64709.80078
Reactions
ATP + UTP + NH(3) → ADP + phosphate + CTP.
Protein Details
2. Glutamine synthetase
General function:
Involved in glutamate-ammonia ligase activity
Specific function:
ATP + L-glutamate + NH(3) = ADP + phosphate + L-glutamine
Gene Name:
GLN1
Uniprot ID:
P32288
Molecular weight:
41705.60156
Reactions
ATP + L-glutamate + NH(3) → ADP + phosphate + L-glutamine.
Protein Details
3. CTP synthase 2
General function:
Involved in CTP synthase activity
Specific function:
Catalyzes the ATP-dependent amination of UTP to CTP with either L-glutamine or ammonia as the source of nitrogen. Plays an important role in the regulation of phospholipid synthesis
Gene Name:
URA8
Uniprot ID:
P38627
Molecular weight:
63055.69922
Reactions
ATP + UTP + NH(3) → ADP + phosphate + CTP.
Protein Details
4. Urea amidolyase
General function:
Involved in carbon-nitrogen ligase activity, with glutamine as amido-N-donor
Specific function:
Hydrolysis of urea to ammonia and CO(2)
Gene Name:
DUR1
Uniprot ID:
P32528
Molecular weight:
201830.0
Reactions
ATP + urea + HCO(3)(-) → ADP + phosphate + urea-1-carboxylate.
Urea-1-carboxylate + H(2)O → 2 CO(2) + 2 NH(3).
Protein Details
5. Ureidoglycolate hydrolase
General function:
Involved in ureidoglycolate hydrolase activity
Specific function:
Utilization of purines as secondary nitrogen sources, when primary sources are limiting
Gene Name:
DAL3
Uniprot ID:
P32459
Molecular weight:
21726.59961
Reactions
(S)-ureidoglycolate + H(2)O → glyoxylate + 2 NH(3) + CO(2).
Protein Details
6. Pyridoxamine 5'-phosphate oxidase
General function:
Involved in pyridoxamine-phosphate oxidase activity
Specific function:
Catalyzes the oxidation of either pyridoxine 5'- phosphate (PNP) or pyridoxamine 5'-phosphate (PMP) into pyridoxal 5'-phosphate (PLP)
Gene Name:
PDX3
Uniprot ID:
P38075
Molecular weight:
26908.0
Reactions
Pyridoxamine 5'-phosphate + H(2)O + O(2) → pyridoxal 5'-phosphate + NH(3) + H(2)O(2).
Pyridoxine 5'-phosphate + O(2) → pyridoxal 5'-phosphate + H(2)O(2).
Protein Details
7. Cystathionine gamma-lyase
General function:
Involved in pyridoxal phosphate binding
Specific function:
L-cystathionine + H(2)O = L-cysteine + NH(3) + 2-oxobutanoate
Gene Name:
CYS3
Uniprot ID:
P31373
Molecular weight:
42541.69922
Reactions
L-cystathionine + H(2)O → L-cysteine + NH(3) + 2-oxobutanoate.
Protein Details
8. Cytidine deaminase
General function:
Involved in zinc ion binding
Specific function:
This enzyme scavenge exogenous and endogenous cytidine and 2'-deoxycytidine for UMP synthesis
Gene Name:
CDD1
Uniprot ID:
Q06549
Molecular weight:
15535.90039
Reactions
Cytidine + H(2)O → uridine + NH(3).
Protein Details
9. Adenosine deaminase
General function:
Involved in deaminase activity
Specific function:
Adenosine + H(2)O = inosine + NH(3)
Gene Name:
AAH1
Uniprot ID:
P53909
Molecular weight:
39634.69922
Reactions
Adenosine + H(2)O → inosine + NH(3).
Protein Details
10. Threonine dehydratase, mitochondrial
General function:
Involved in catalytic activity
Specific function:
L-threonine = 2-oxobutanoate + NH(3)
Gene Name:
ILV1
Uniprot ID:
P00927
Molecular weight:
63830.69922
Reactions
L-threonine → 2-oxobutanoate + NH(3).
Protein Details
11. Catabolic L-serine/threonine dehydratase
General function:
Involved in catalytic activity
Specific function:
L-serine = pyruvate + NH(3)
Gene Name:
CHA1
Uniprot ID:
P25379
Molecular weight:
39301.0
Reactions
L-serine → pyruvate + NH(3).
L-threonine → 2-oxobutanoate + NH(3).
Protein Details
12. Osmotic growth protein 1
General function:
Involved in electron carrier activity
Specific function:
Could be a fumarate reductase
Gene Name:
OSM1
Uniprot ID:
P21375
Molecular weight:
55064.80078
Reactions
Protein Details
13. Cytosine deaminase
General function:
Involved in zinc ion binding
Specific function:
Converts cytosine to uracil or 5-methylcytosine to thymine by deaminating carbon number 4
Gene Name:
FCY1
Uniprot ID:
Q12178
Molecular weight:
17506.90039
Reactions
Cytosine + H(2)O → uracil + NH(3).
Protein Details
14. Nicotinamidase
General function:
Involved in catalytic activity
Specific function:
Catalyzes the deamidation of nicotinamide, an early step in the NAD(+) salvage pathway. Positively regulates SIR2-mediated silencing and longevity by preventing the accumulation of intracellular nicotinamide, an inhibitor of SIR2, during times of stress. Acts also on nicotinyl hydroxamate
Gene Name:
PNC1
Uniprot ID:
P53184
Molecular weight:
24993.19922
Reactions
Nicotinamide + H(2)O → nicotinate + NH(3).
Protein Details
15. NAD-specific glutamate dehydrogenase
General function:
Involved in oxidoreductase activity
Specific function:
L-glutamate + H(2)O + NAD(+) = 2-oxoglutarate + NH(3) + NADH
Gene Name:
GDH2
Uniprot ID:
P33327
Molecular weight:
124331.0
Reactions
L-glutamate + H(2)O + NAD(+) → 2-oxoglutarate + NH(3) + NADH.
Protein Details
16. L-asparaginase 2
General function:
Involved in asparaginase activity
Specific function:
L-asparagine + H(2)O = L-aspartate + NH(3)
Gene Name:
ASP3-1
Uniprot ID:
P11163
Molecular weight:
38686.19922
Reactions
L-asparagine + H(2)O → L-aspartate + NH(3).
Protein Details
17. NADP-specific glutamate dehydrogenase 2
General function:
Involved in oxidoreductase activity
Specific function:
L-glutamate + H(2)O + NADP(+) = 2-oxoglutarate + NH(3) + NADPH
Gene Name:
GDH3
Uniprot ID:
P39708
Molecular weight:
49626.80078
Reactions
L-glutamate + H(2)O + NADP(+) → 2-oxoglutarate + NH(3) + NADPH.
Protein Details
18. Porphobilinogen deaminase
General function:
Involved in hydroxymethylbilane synthase activity
Specific function:
Tetrapolymerization of the monopyrrole PBG into the hydroxymethylbilane pre-uroporphyrinogen in several discrete steps
Gene Name:
HEM3
Uniprot ID:
P28789
Molecular weight:
36674.19922
Reactions
4 porphobilinogen + H(2)O → hydroxymethylbilane + 4 NH(3).
Protein Details
19. Aminomethyltransferase, mitochondrial
General function:
Involved in aminomethyltransferase activity
Specific function:
The glycine cleavage system (glycine decarboxylase complex) catalyzes the degradation of glycine
Gene Name:
GCV1
Uniprot ID:
P48015
Molecular weight:
44468.69922
Reactions
[Protein]-S(8)-aminomethyldihydrolipoyllysine + tetrahydrofolate → [protein]-dihydrolipoyllysine + 5,10-methylenetetrahydrofolate + NH(3).
Protein Details
20. L-asparaginase 1
General function:
Involved in asparaginase activity
Specific function:
L-asparagine + H(2)O = L-aspartate + NH(3)
Gene Name:
ASP1
Uniprot ID:
P38986
Molecular weight:
41394.80078
Reactions
L-asparagine + H(2)O → L-aspartate + NH(3).
Protein Details
21. NADP-specific glutamate dehydrogenase 1
General function:
Involved in oxidoreductase activity
Specific function:
L-glutamate + H(2)O + NADP(+) = 2-oxoglutarate + NH(3) + NADPH
Gene Name:
GDH1
Uniprot ID:
P07262
Molecular weight:
49569.60156
Reactions
L-glutamate + H(2)O + NADP(+) → 2-oxoglutarate + NH(3) + NADPH.
Protein Details
22. Threo-3-hydroxyaspartate ammonia-lyase
General function:
Involved in catalytic activity
Specific function:
Exhibits dehydratase activity specific for L-threo-3- hydroxyaspartate
Gene Name:
SRY1
Uniprot ID:
P36007
Molecular weight:
34898.69922
Reactions
Threo-3-hydroxy-L-aspartate → oxaloacetate + NH(3).
Protein Details
23. L-serine dehydratase
General function:
Involved in catalytic activity
Specific function:
L-serine = pyruvate + NH(3)
Gene Name:
SDL1
Uniprot ID:
P0CF21
Molecular weight:
13942.90039
Reactions
L-serine → pyruvate + NH(3).
Protein Details
24. Cystathionine beta-lyase
General function:
Involved in pyridoxal phosphate binding
Specific function:
L-cystathionine + H(2)O = L-homocysteine + NH(3) + pyruvate
Gene Name:
STR3
Uniprot ID:
P53101
Molecular weight:
51828.0
Reactions
L-cystathionine + H(2)O → L-homocysteine + NH(3) + pyruvate.
Protein Details
25. AMP deaminase
General function:
Involved in deaminase activity
Specific function:
AMP deaminase plays a critical role in energy metabolism
Gene Name:
AMD1
Uniprot ID:
P15274
Molecular weight:
93300.79688
Reactions
AMP + H(2)O → IMP + NH(3).
Protein Details
26. Bifunctional protein RIB2
General function:
Involved in zinc ion binding
Specific function:
Involved in riboflavin biosynthesis. Converts 2,5- diamino-6-(ribosylamino)-4(3H)-pyrimidinone 5'-phosphate into 5- amino-6-(ribosylamino)-2,4(1H,3H)-pyrimidinedione 5'-phosphate
Gene Name:
RIB2
Uniprot ID:
Q12362
Molecular weight:
67035.29688
Reactions
tRNA uridine → tRNA pseudouridine.
2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)pyrimidine + H(2)O → 5-amino-6-(5-phosphoribosylamino)uracil + NH(3).
Protein Details
27. Putative cystathionine beta-lyase
General function:
Involved in pyridoxal phosphate binding
Specific function:
L-cystathionine + H(2)O = L-homocysteine + NH(3) + pyruvate
Gene Name:
IRC7
Uniprot ID:
P43623
Molecular weight:
36971.10156
Reactions
L-cystathionine + H(2)O → L-homocysteine + NH(3) + pyruvate.
Protein Details
28. Deoxycytidylate deaminase
General function:
Involved in zinc ion binding
Specific function:
Supplies the nucleotide substrate for thymidylate synthetase
Gene Name:
DCD1
Uniprot ID:
P06773
Molecular weight:
35645.69922
Reactions
dCMP + H(2)O → dUMP + NH(3).
Protein Details
29. Probable amidase
General function:
Involved in carbon-nitrogen ligase activity, with glutamine as amido-N-donor
Specific function:
A monocarboxylic acid amide + H(2)O = a monocarboxylate + NH(3)
Gene Name:
AMD2
Uniprot ID:
P22580
Molecular weight:
61409.5
Reactions
A monocarboxylic acid amide + H(2)O → a monocarboxylate + NH(3).
Protein Details
30. Probable guanine deaminase
General function:
Involved in hydrolase activity
Specific function:
Catalyzes the hydrolytic deamination of guanine, producing xanthine and ammonia
Gene Name:
GUD1
Uniprot ID:
Q07729
Molecular weight:
55203.19922
Reactions
Guanine + H(2)O → xanthine + NH(3).
Protein Details
31. Fumarate hydratase, mitochondrial
General function:
Involved in fumarate hydratase activity
Specific function:
(S)-malate = fumarate + H(2)O
Gene Name:
FUM1
Uniprot ID:
P08417
Molecular weight:
53151.5
Reactions
(S)-malate → fumarate + H(2)O.
Protein Details
32. D-serine dehydratase
General function:
Involved in D-serine ammonia-lyase activity
Specific function:
Converts specifically D-serine to pyruvate and ammonia. May play a role in D-serine detoxification
Gene Name:
DSD1
Uniprot ID:
P53095
Molecular weight:
47827.39844
Reactions
D-serine → pyruvate + NH(3).