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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
Purine metabolismec00230 Map00230
Selenocompound metabolismec00450 Map00450
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).