| Record Information |
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| Version | 5.0 |
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| Status | Detected but not Quantified |
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| Creation Date | 2021-09-10 23:52:27 UTC |
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| Update Date | 2021-09-26 22:56:11 UTC |
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| HMDB ID | HMDB0246862 |
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| Secondary Accession Numbers | None |
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| Metabolite Identification |
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| Common Name | 5,6-Dihydroxyuracil |
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| Description | 5,6-Dihydroxyuracil, also known as isodialuric acid or isodialate, belongs to the class of organic compounds known as hydroxypyrimidines. These are organic compounds containing a hydroxyl group attached to a pyrimidine ring. Pyrimidine is a 6-membered ring consisting of four carbon atoms and two nitrogen centers at the 1- and 3- ring positions. 5,6-Dihydroxyuracil is a secondary metabolite. Secondary metabolites are metabolically or physiologically non-essential metabolites that may serve a role as defense or signalling molecules. In some cases they are simply molecules that arise from the incomplete metabolism of other secondary metabolites. Based on a literature review a significant number of articles have been published on 5,6-Dihydroxyuracil. This compound has been identified in human blood as reported by (PMID: 31557052 ). 5,6-dihydroxyuracil is not a naturally occurring metabolite and is only found in those individuals exposed to this compound or its derivatives. Technically 5,6-Dihydroxyuracil is part of the human exposome. The exposome can be defined as the collection of all the exposures of an individual in a lifetime and how those exposures relate to health. An individual's exposure begins before birth and includes insults from environmental and occupational sources. |
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| Structure | InChI=1S/C4H4N2O4/c7-1-2(8)5-4(10)6-3(1)9/h7H,(H3,5,6,8,9,10) |
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| Synonyms | | Value | Source |
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| 5,6-Dihydroxy-1,2,3,4-tetrahydropyrimidine-2,4-dione | ChEBI | | Isodialuric acid | ChEBI | | Isodialate | Generator | | Isodialic acid | Generator | | 5,6-Dihydroxy-2,4(1H,3H)pyrimidinedione | HMDB |
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| Chemical Formula | C4H4N2O4 |
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| Average Molecular Weight | 144.086 |
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| Monoisotopic Molecular Weight | 144.017106617 |
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| IUPAC Name | 5,6-dihydroxy-1,2,3,4-tetrahydropyrimidine-2,4-dione |
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| Traditional Name | 5,6-dihydroxy-1,3-dihydropyrimidine-2,4-dione |
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| CAS Registry Number | Not Available |
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| SMILES | OC1=C(O)C(=O)NC(=O)N1 |
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| InChI Identifier | InChI=1S/C4H4N2O4/c7-1-2(8)5-4(10)6-3(1)9/h7H,(H3,5,6,8,9,10) |
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| InChI Key | YFQOVSGFCVQZSW-UHFFFAOYSA-N |
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| Chemical Taxonomy |
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| Description | Belongs to the class of organic compounds known as hydroxypyrimidines. These are organic compounds containing a hydroxyl group attached to a pyrimidine ring. Pyrimidine is a 6-membered ring consisting of four carbon atoms and two nitrogen centers at the 1- and 3- ring positions. |
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| Kingdom | Organic compounds |
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| Super Class | Organoheterocyclic compounds |
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| Class | Diazines |
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| Sub Class | Pyrimidines and pyrimidine derivatives |
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| Direct Parent | Hydroxypyrimidines |
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| Alternative Parents | |
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| Substituents | - Pyrimidone
- Hydroxypyrimidine
- Hydropyrimidine
- Vinylogous acid
- Vinylogous amide
- Heteroaromatic compound
- Lactam
- Urea
- Azacycle
- Organic nitrogen compound
- Organic oxygen compound
- Organooxygen compound
- Organonitrogen compound
- Hydrocarbon derivative
- Organopnictogen compound
- Organic oxide
- Aromatic heteromonocyclic compound
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| Molecular Framework | Aromatic heteromonocyclic compounds |
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| External Descriptors | Not Available |
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| Ontology |
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| Physiological effect | Not Available |
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| Disposition | |
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| Process | Not Available |
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| Role | Not Available |
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| Physical Properties |
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| State | Not Available |
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| Experimental Molecular Properties | | Property | Value | Reference |
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| Melting Point | Not Available | Not Available | | Boiling Point | Not Available | Not Available | | Water Solubility | Not Available | Not Available | | LogP | Not Available | Not Available |
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| Experimental Chromatographic Properties | Not Available |
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| Predicted Molecular Properties | |
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| Predicted Chromatographic Properties | Predicted Collision Cross Sections| Predictor | Adduct Type | CCS Value (Å2) | Reference |
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| DeepCCS | [M+H]+ | 126.993 | 30932474 | | DeepCCS | [M-H]- | 123.885 | 30932474 | | DeepCCS | [M-2H]- | 160.972 | 30932474 | | DeepCCS | [M+Na]+ | 135.856 | 30932474 |
Predicted Retention Times Underivatized| Chromatographic Method | Retention Time | Reference |
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| Predicted by Siyang on May 30, 2022 | 9.5157 minutes | 33406817 | | Predicted by Siyang using ReTip algorithm on June 8, 2022 | 3.06 minutes | 32390414 | | Fem_Long = Waters ACQUITY UPLC HSS T3 C18 with Water:MeOH and 0.1% Formic Acid | 571.0 seconds | 40023050 | | Fem_Lipids = Ascentis Express C18 with (60:40 water:ACN):(90:10 IPA:ACN) and 10mM NH4COOH + 0.1% Formic Acid | 354.1 seconds | 40023050 | | Life_Old = Waters ACQUITY UPLC BEH C18 with Water:(20:80 acetone:ACN) and 0.1% Formic Acid | 73.3 seconds | 40023050 | | Life_New = RP Waters ACQUITY UPLC HSS T3 C18 with Water:(30:70 MeOH:ACN) and 0.1% Formic Acid | 241.1 seconds | 40023050 | | RIKEN = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid | 69.5 seconds | 40023050 | | Eawag_XBridgeC18 = XBridge C18 3.5u 2.1x50 mm with Water:MeOH and 0.1% Formic Acid | 282.8 seconds | 40023050 | | BfG_NTS_RP1 =Agilent Zorbax Eclipse Plus C18 (2.1 mm x 150 mm, 3.5 um) with Water:ACN and 0.1% Formic Acid | 295.8 seconds | 40023050 | | HILIC_BDD_2 = Merck SeQuant ZIC-HILIC with ACN(0.1% formic acid):water(16 mM ammonium formate) | 327.8 seconds | 40023050 | | UniToyama_Atlantis = RP Waters Atlantis T3 (2.1 x 150 mm, 5 um) with ACN:Water and 0.1% Formic Acid | 626.5 seconds | 40023050 | | BDD_C18 = Hypersil Gold 1.9µm C18 with Water:ACN and 0.1% Formic Acid | 205.4 seconds | 40023050 | | UFZ_Phenomenex = Kinetex Core-Shell C18 2.6 um, 3.0 x 100 mm, Phenomenex with Water:MeOH and 0.1% Formic Acid | 771.5 seconds | 40023050 | | SNU_RIKEN_POS = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid | 212.5 seconds | 40023050 | | RPMMFDA = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid | 249.6 seconds | 40023050 | | MTBLS87 = Merck SeQuant ZIC-pHILIC column with ACN:Water and :ammonium carbonate | 677.0 seconds | 40023050 | | KI_GIAR_zic_HILIC_pH2_7 = Merck SeQuant ZIC-HILIC with ACN:Water and 0.1% FA | 232.8 seconds | 40023050 | | Meister zic-pHILIC pH9.3 = Merck SeQuant ZIC-pHILIC column with ACN:Water 5mM NH4Ac pH9.3 and 5mM ammonium acetate in water | 304.3 seconds | 40023050 |
Predicted Kovats Retention IndicesUnderivatizedDerivatized| Derivative Name / Structure | SMILES | Kovats RI Value | Column Type | Reference |
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| 5,6-Dihydroxyuracil,3TMS,isomer #1 | C[Si](C)(C)OC1=C(O[Si](C)(C)C)N([Si](C)(C)C)C(=O)[NH]C1=O | 1822.9 | Semi standard non polar | 33892256 | | 5,6-Dihydroxyuracil,3TMS,isomer #1 | C[Si](C)(C)OC1=C(O[Si](C)(C)C)N([Si](C)(C)C)C(=O)[NH]C1=O | 1849.6 | Standard non polar | 33892256 | | 5,6-Dihydroxyuracil,3TMS,isomer #1 | C[Si](C)(C)OC1=C(O[Si](C)(C)C)N([Si](C)(C)C)C(=O)[NH]C1=O | 1875.2 | Standard polar | 33892256 | | 5,6-Dihydroxyuracil,3TMS,isomer #2 | C[Si](C)(C)OC1=C(O[Si](C)(C)C)C(=O)N([Si](C)(C)C)C(=O)[NH]1 | 1769.0 | Semi standard non polar | 33892256 | | 5,6-Dihydroxyuracil,3TMS,isomer #2 | C[Si](C)(C)OC1=C(O[Si](C)(C)C)C(=O)N([Si](C)(C)C)C(=O)[NH]1 | 1827.5 | Standard non polar | 33892256 | | 5,6-Dihydroxyuracil,3TMS,isomer #2 | C[Si](C)(C)OC1=C(O[Si](C)(C)C)C(=O)N([Si](C)(C)C)C(=O)[NH]1 | 1907.4 | Standard polar | 33892256 | | 5,6-Dihydroxyuracil,3TMS,isomer #3 | C[Si](C)(C)OC1=C(O)C(=O)N([Si](C)(C)C)C(=O)N1[Si](C)(C)C | 1965.5 | Semi standard non polar | 33892256 | | 5,6-Dihydroxyuracil,3TMS,isomer #3 | C[Si](C)(C)OC1=C(O)C(=O)N([Si](C)(C)C)C(=O)N1[Si](C)(C)C | 1822.6 | Standard non polar | 33892256 | | 5,6-Dihydroxyuracil,3TMS,isomer #3 | C[Si](C)(C)OC1=C(O)C(=O)N([Si](C)(C)C)C(=O)N1[Si](C)(C)C | 2008.1 | Standard polar | 33892256 | | 5,6-Dihydroxyuracil,3TMS,isomer #4 | C[Si](C)(C)OC1=C(O)N([Si](C)(C)C)C(=O)N([Si](C)(C)C)C1=O | 1843.0 | Semi standard non polar | 33892256 | | 5,6-Dihydroxyuracil,3TMS,isomer #4 | C[Si](C)(C)OC1=C(O)N([Si](C)(C)C)C(=O)N([Si](C)(C)C)C1=O | 1845.8 | Standard non polar | 33892256 | | 5,6-Dihydroxyuracil,3TMS,isomer #4 | C[Si](C)(C)OC1=C(O)N([Si](C)(C)C)C(=O)N([Si](C)(C)C)C1=O | 1951.8 | Standard polar | 33892256 | | 5,6-Dihydroxyuracil,4TMS,isomer #1 | C[Si](C)(C)OC1=C(O[Si](C)(C)C)N([Si](C)(C)C)C(=O)N([Si](C)(C)C)C1=O | 2029.2 | Semi standard non polar | 33892256 | | 5,6-Dihydroxyuracil,4TMS,isomer #1 | C[Si](C)(C)OC1=C(O[Si](C)(C)C)N([Si](C)(C)C)C(=O)N([Si](C)(C)C)C1=O | 1920.9 | Standard non polar | 33892256 | | 5,6-Dihydroxyuracil,4TMS,isomer #1 | C[Si](C)(C)OC1=C(O[Si](C)(C)C)N([Si](C)(C)C)C(=O)N([Si](C)(C)C)C1=O | 1778.5 | Standard polar | 33892256 | | 5,6-Dihydroxyuracil,3TBDMS,isomer #1 | CC(C)(C)[Si](C)(C)OC1=C(O[Si](C)(C)C(C)(C)C)N([Si](C)(C)C(C)(C)C)C(=O)[NH]C1=O | 2393.7 | Semi standard non polar | 33892256 | | 5,6-Dihydroxyuracil,3TBDMS,isomer #1 | CC(C)(C)[Si](C)(C)OC1=C(O[Si](C)(C)C(C)(C)C)N([Si](C)(C)C(C)(C)C)C(=O)[NH]C1=O | 2535.2 | Standard non polar | 33892256 | | 5,6-Dihydroxyuracil,3TBDMS,isomer #1 | CC(C)(C)[Si](C)(C)OC1=C(O[Si](C)(C)C(C)(C)C)N([Si](C)(C)C(C)(C)C)C(=O)[NH]C1=O | 2263.2 | Standard polar | 33892256 | | 5,6-Dihydroxyuracil,3TBDMS,isomer #2 | CC(C)(C)[Si](C)(C)OC1=C(O[Si](C)(C)C(C)(C)C)C(=O)N([Si](C)(C)C(C)(C)C)C(=O)[NH]1 | 2352.6 | Semi standard non polar | 33892256 | | 5,6-Dihydroxyuracil,3TBDMS,isomer #2 | CC(C)(C)[Si](C)(C)OC1=C(O[Si](C)(C)C(C)(C)C)C(=O)N([Si](C)(C)C(C)(C)C)C(=O)[NH]1 | 2490.5 | Standard non polar | 33892256 | | 5,6-Dihydroxyuracil,3TBDMS,isomer #2 | CC(C)(C)[Si](C)(C)OC1=C(O[Si](C)(C)C(C)(C)C)C(=O)N([Si](C)(C)C(C)(C)C)C(=O)[NH]1 | 2275.8 | Standard polar | 33892256 | | 5,6-Dihydroxyuracil,3TBDMS,isomer #3 | CC(C)(C)[Si](C)(C)OC1=C(O)C(=O)N([Si](C)(C)C(C)(C)C)C(=O)N1[Si](C)(C)C(C)(C)C | 2426.6 | Semi standard non polar | 33892256 | | 5,6-Dihydroxyuracil,3TBDMS,isomer #3 | CC(C)(C)[Si](C)(C)OC1=C(O)C(=O)N([Si](C)(C)C(C)(C)C)C(=O)N1[Si](C)(C)C(C)(C)C | 2497.2 | Standard non polar | 33892256 | | 5,6-Dihydroxyuracil,3TBDMS,isomer #3 | CC(C)(C)[Si](C)(C)OC1=C(O)C(=O)N([Si](C)(C)C(C)(C)C)C(=O)N1[Si](C)(C)C(C)(C)C | 2328.1 | Standard polar | 33892256 | | 5,6-Dihydroxyuracil,3TBDMS,isomer #4 | CC(C)(C)[Si](C)(C)OC1=C(O)N([Si](C)(C)C(C)(C)C)C(=O)N([Si](C)(C)C(C)(C)C)C1=O | 2441.2 | Semi standard non polar | 33892256 | | 5,6-Dihydroxyuracil,3TBDMS,isomer #4 | CC(C)(C)[Si](C)(C)OC1=C(O)N([Si](C)(C)C(C)(C)C)C(=O)N([Si](C)(C)C(C)(C)C)C1=O | 2506.3 | Standard non polar | 33892256 | | 5,6-Dihydroxyuracil,3TBDMS,isomer #4 | CC(C)(C)[Si](C)(C)OC1=C(O)N([Si](C)(C)C(C)(C)C)C(=O)N([Si](C)(C)C(C)(C)C)C1=O | 2296.7 | Standard polar | 33892256 | | 5,6-Dihydroxyuracil,4TBDMS,isomer #1 | CC(C)(C)[Si](C)(C)OC1=C(O[Si](C)(C)C(C)(C)C)N([Si](C)(C)C(C)(C)C)C(=O)N([Si](C)(C)C(C)(C)C)C1=O | 2668.5 | Semi standard non polar | 33892256 | | 5,6-Dihydroxyuracil,4TBDMS,isomer #1 | CC(C)(C)[Si](C)(C)OC1=C(O[Si](C)(C)C(C)(C)C)N([Si](C)(C)C(C)(C)C)C(=O)N([Si](C)(C)C(C)(C)C)C1=O | 2735.2 | Standard non polar | 33892256 | | 5,6-Dihydroxyuracil,4TBDMS,isomer #1 | CC(C)(C)[Si](C)(C)OC1=C(O[Si](C)(C)C(C)(C)C)N([Si](C)(C)C(C)(C)C)C(=O)N([Si](C)(C)C(C)(C)C)C1=O | 2319.0 | Standard polar | 33892256 |
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| GC-MS Spectra| Spectrum Type | Description | Splash Key | Deposition Date | Source | View |
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| Predicted GC-MS | Predicted GC-MS Spectrum - 5,6-Dihydroxyuracil GC-MS (Non-derivatized) - 70eV, Positive | splash10-0006-3900000000-8d356542d7b34ff64425 | 2021-09-24 | Wishart Lab | View Spectrum | | Predicted GC-MS | Predicted GC-MS Spectrum - 5,6-Dihydroxyuracil GC-MS (Non-derivatized) - 70eV, Positive | Not Available | 2021-10-12 | Wishart Lab | View Spectrum | | Predicted GC-MS | Predicted GC-MS Spectrum - 5,6-Dihydroxyuracil GC-MS (TMS_1_1) - 70eV, Positive | Not Available | 2021-11-03 | Wishart Lab | View Spectrum | | Predicted GC-MS | Predicted GC-MS Spectrum - 5,6-Dihydroxyuracil GC-MS (TMS_1_2) - 70eV, Positive | Not Available | 2021-11-03 | Wishart Lab | View Spectrum | | Predicted GC-MS | Predicted GC-MS Spectrum - 5,6-Dihydroxyuracil GC-MS (TMS_1_3) - 70eV, Positive | Not Available | 2021-11-03 | Wishart Lab | View Spectrum | | Predicted GC-MS | Predicted GC-MS Spectrum - 5,6-Dihydroxyuracil GC-MS (TMS_1_4) - 70eV, Positive | Not Available | 2021-11-03 | Wishart Lab | View Spectrum | | Predicted GC-MS | Predicted GC-MS Spectrum - 5,6-Dihydroxyuracil GC-MS (TMS_2_1) - 70eV, Positive | Not Available | 2021-11-03 | Wishart Lab | View Spectrum | | Predicted GC-MS | Predicted GC-MS Spectrum - 5,6-Dihydroxyuracil GC-MS (TMS_2_2) - 70eV, Positive | Not Available | 2021-11-03 | Wishart Lab | View Spectrum | | Predicted GC-MS | Predicted GC-MS Spectrum - 5,6-Dihydroxyuracil GC-MS (TMS_2_3) - 70eV, Positive | Not Available | 2021-11-03 | Wishart Lab | View Spectrum | | Predicted GC-MS | Predicted GC-MS Spectrum - 5,6-Dihydroxyuracil GC-MS (TMS_2_4) - 70eV, Positive | Not Available | 2021-11-03 | Wishart Lab | View Spectrum | | Predicted GC-MS | Predicted GC-MS Spectrum - 5,6-Dihydroxyuracil GC-MS (TMS_2_5) - 70eV, Positive | Not Available | 2021-11-03 | Wishart Lab | View Spectrum | | Predicted GC-MS | Predicted GC-MS Spectrum - 5,6-Dihydroxyuracil GC-MS (TMS_2_6) - 70eV, Positive | Not Available | 2021-11-03 | Wishart Lab | View Spectrum | | Predicted GC-MS | Predicted GC-MS Spectrum - 5,6-Dihydroxyuracil GC-MS (TBDMS_1_1) - 70eV, Positive | Not Available | 2021-11-03 | Wishart Lab | View Spectrum | | Predicted GC-MS | Predicted GC-MS Spectrum - 5,6-Dihydroxyuracil GC-MS (TBDMS_1_2) - 70eV, Positive | Not Available | 2021-11-03 | Wishart Lab | View Spectrum | | Predicted GC-MS | Predicted GC-MS Spectrum - 5,6-Dihydroxyuracil GC-MS (TBDMS_1_3) - 70eV, Positive | Not Available | 2021-11-03 | Wishart Lab | View Spectrum | | Predicted GC-MS | Predicted GC-MS Spectrum - 5,6-Dihydroxyuracil GC-MS (TBDMS_1_4) - 70eV, Positive | Not Available | 2021-11-03 | Wishart Lab | View Spectrum | | Predicted GC-MS | Predicted GC-MS Spectrum - 5,6-Dihydroxyuracil GC-MS (TBDMS_2_1) - 70eV, Positive | Not Available | 2021-11-03 | Wishart Lab | View Spectrum | | Predicted GC-MS | Predicted GC-MS Spectrum - 5,6-Dihydroxyuracil GC-MS (TBDMS_2_2) - 70eV, Positive | Not Available | 2021-11-03 | Wishart Lab | View Spectrum | | Predicted GC-MS | Predicted GC-MS Spectrum - 5,6-Dihydroxyuracil GC-MS (TBDMS_2_3) - 70eV, Positive | Not Available | 2021-11-03 | Wishart Lab | View Spectrum | | Predicted GC-MS | Predicted GC-MS Spectrum - 5,6-Dihydroxyuracil GC-MS (TBDMS_2_4) - 70eV, Positive | Not Available | 2021-11-03 | Wishart Lab | View Spectrum | | Predicted GC-MS | Predicted GC-MS Spectrum - 5,6-Dihydroxyuracil GC-MS (TBDMS_2_5) - 70eV, Positive | Not Available | 2021-11-03 | Wishart Lab | View Spectrum | | Predicted GC-MS | Predicted GC-MS Spectrum - 5,6-Dihydroxyuracil GC-MS (TBDMS_2_6) - 70eV, Positive | Not Available | 2021-11-03 | Wishart Lab | View Spectrum |
MS/MS Spectra| Spectrum Type | Description | Splash Key | Deposition Date | Source | View |
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| Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - 5,6-Dihydroxyuracil 10V, Positive-QTOF | splash10-0002-0900000000-6ee40f9b62ee45581cc4 | 2021-10-12 | Wishart Lab | View Spectrum | | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - 5,6-Dihydroxyuracil 20V, Positive-QTOF | splash10-0fdw-9500000000-b53f57adbfae337112d5 | 2021-10-12 | Wishart Lab | View Spectrum | | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - 5,6-Dihydroxyuracil 40V, Positive-QTOF | splash10-05tf-9000000000-24aa187a6d98a37756b1 | 2021-10-12 | Wishart Lab | View Spectrum | | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - 5,6-Dihydroxyuracil 10V, Negative-QTOF | splash10-0006-9600000000-d046640189ef270f969c | 2021-10-12 | Wishart Lab | View Spectrum | | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - 5,6-Dihydroxyuracil 20V, Negative-QTOF | splash10-0006-9000000000-62bfe9c7670515fced24 | 2021-10-12 | Wishart Lab | View Spectrum | | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - 5,6-Dihydroxyuracil 40V, Negative-QTOF | splash10-0006-9000000000-90726b17dc36e29c5299 | 2021-10-12 | Wishart Lab | View Spectrum |
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