Record Information |
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Version | 5.0 |
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Status | Expected but not Quantified |
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Creation Date | 2013-07-04 18:58:38 UTC |
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Update Date | 2021-09-14 15:44:46 UTC |
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HMDB ID | HMDB0060774 |
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Secondary Accession Numbers | |
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Metabolite Identification |
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Common Name | 5-Carboxy-2'-deoxyuridine |
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Description | 5-Carboxy-2'-deoxyuridine belongs to the class of organic compounds known as pyrimidine 2'-deoxyribonucleosides. Pyrimidine 2'-deoxyribonucleosides are compounds consisting of a pyrimidine linked to a ribose which lacks a hydroxyl group at position 2. 5-Carboxy-2'-deoxyuridine is an extremely weak basic (essentially neutral) compound (based on its pKa). 5-Carboxy-2'-deoxyuridine is a metabolite of trifluridine. Trifluridine (also called trifluorothymidine or TFT) is an anti-herpesvirus antiviral drug, used primarily on the eye. The brand is now owned by Monarch Pharmaceuticals, which is wholly owned by King Pharmaceuticals. It was sold under the trade name, Viroptic, by Glaxo Wellcome, now merged into GlaxoSmithKline. |
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Structure | OC[C@H]1O[C@@H](C[C@@H]1O)N1C=C(C(O)=O)C(O)=NC1=O InChI=1S/C10H12N2O7/c13-3-6-5(14)1-7(19-6)12-2-4(9(16)17)8(15)11-10(12)18/h2,5-7,13-14H,1,3H2,(H,16,17)(H,11,15,18)/t5-,6+,7-/m0/s1 |
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Synonyms | Not Available |
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Chemical Formula | C10H12N2O7 |
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Average Molecular Weight | 272.2115 |
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Monoisotopic Molecular Weight | 272.064450748 |
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IUPAC Name | 4-hydroxy-1-[(2S,4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-2-oxo-1,2-dihydropyrimidine-5-carboxylic acid |
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Traditional Name | 4-hydroxy-1-[(2S,4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-2-oxopyrimidine-5-carboxylic acid |
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CAS Registry Number | Not Available |
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SMILES | OC[C@H]1O[C@@H](C[C@@H]1O)N1C=C(C(O)=O)C(O)=NC1=O |
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InChI Identifier | InChI=1S/C10H12N2O7/c13-3-6-5(14)1-7(19-6)12-2-4(9(16)17)8(15)11-10(12)18/h2,5-7,13-14H,1,3H2,(H,16,17)(H,11,15,18)/t5-,6+,7-/m0/s1 |
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InChI Key | GAGYTXTVUMXAOC-XVMARJQXSA-N |
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Chemical Taxonomy |
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Description | Belongs to the class of organic compounds known as pyrimidine 2'-deoxyribonucleosides. Pyrimidine 2'-deoxyribonucleosides are compounds consisting of a pyrimidine linked to a ribose which lacks a hydroxyl group at position 2. |
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Kingdom | Organic compounds |
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Super Class | Nucleosides, nucleotides, and analogues |
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Class | Pyrimidine nucleosides |
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Sub Class | Pyrimidine 2'-deoxyribonucleosides |
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Direct Parent | Pyrimidine 2'-deoxyribonucleosides |
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Alternative Parents | |
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Substituents | - Pyrimidine 2'-deoxyribonucleoside
- Hydropyrimidine carboxylic acid derivative
- Pyrimidine-5-carboxylic acid
- Pyrimidine-5-carboxylic acid or derivatives
- Pyrimidone
- Hydropyrimidine
- Pyrimidine
- Heteroaromatic compound
- Vinylogous amide
- Tetrahydrofuran
- Lactam
- Urea
- Secondary alcohol
- Carboxylic acid derivative
- Carboxylic acid
- Monocarboxylic acid or derivatives
- Oxacycle
- Azacycle
- Organoheterocyclic compound
- Organooxygen compound
- Organonitrogen compound
- Alcohol
- Organopnictogen compound
- Primary alcohol
- Organic oxide
- Hydrocarbon derivative
- Organic nitrogen compound
- Organic oxygen compound
- 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 | | Show more...
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Predicted Chromatographic Properties | Predicted Collision Cross SectionsPredicted Kovats Retention IndicesUnderivatizedDerivatizedDerivative Name / Structure | SMILES | Kovats RI Value | Column Type | Reference |
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5-Carboxy-2'-deoxyuridine,1TMS,isomer #1 | C[Si](C)(C)OC[C@H]1O[C@H](N2C=C(C(=O)O)C(O)=NC2=O)C[C@@H]1O | 2548.1 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,1TMS,isomer #2 | C[Si](C)(C)O[C@H]1C[C@@H](N2C=C(C(=O)O)C(O)=NC2=O)O[C@@H]1CO | 2583.8 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,1TMS,isomer #3 | C[Si](C)(C)OC(=O)C1=CN([C@@H]2C[C@H](O)[C@@H](CO)O2)C(=O)N=C1O | 2545.8 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,1TMS,isomer #4 | C[Si](C)(C)OC1=NC(=O)N([C@@H]2C[C@H](O)[C@@H](CO)O2)C=C1C(=O)O | 2542.0 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,2TMS,isomer #1 | C[Si](C)(C)OC[C@H]1O[C@H](N2C=C(C(=O)O[Si](C)(C)C)C(O)=NC2=O)C[C@@H]1O | 2512.3 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,2TMS,isomer #2 | C[Si](C)(C)OC[C@H]1O[C@H](N2C=C(C(=O)O)C(O[Si](C)(C)C)=NC2=O)C[C@@H]1O | 2509.3 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,2TMS,isomer #3 | C[Si](C)(C)OC[C@H]1O[C@H](N2C=C(C(=O)O)C(O)=NC2=O)C[C@@H]1O[Si](C)(C)C | 2508.5 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,2TMS,isomer #4 | C[Si](C)(C)OC(=O)C1=CN([C@@H]2C[C@H](O[Si](C)(C)C)[C@@H](CO)O2)C(=O)N=C1O | 2531.6 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,2TMS,isomer #5 | C[Si](C)(C)OC1=NC(=O)N([C@@H]2C[C@H](O[Si](C)(C)C)[C@@H](CO)O2)C=C1C(=O)O | 2512.2 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,2TMS,isomer #6 | C[Si](C)(C)OC(=O)C1=CN([C@@H]2C[C@H](O)[C@@H](CO)O2)C(=O)N=C1O[Si](C)(C)C | 2507.4 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,3TMS,isomer #1 | C[Si](C)(C)OC[C@H]1O[C@H](N2C=C(C(=O)O[Si](C)(C)C)C(O[Si](C)(C)C)=NC2=O)C[C@@H]1O | 2511.9 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,3TMS,isomer #2 | C[Si](C)(C)OC[C@H]1O[C@H](N2C=C(C(=O)O[Si](C)(C)C)C(O)=NC2=O)C[C@@H]1O[Si](C)(C)C | 2487.5 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,3TMS,isomer #3 | C[Si](C)(C)OC[C@H]1O[C@H](N2C=C(C(=O)O)C(O[Si](C)(C)C)=NC2=O)C[C@@H]1O[Si](C)(C)C | 2486.8 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,3TMS,isomer #4 | C[Si](C)(C)OC(=O)C1=CN([C@@H]2C[C@H](O[Si](C)(C)C)[C@@H](CO)O2)C(=O)N=C1O[Si](C)(C)C | 2531.8 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,4TMS,isomer #1 | C[Si](C)(C)OC[C@H]1O[C@H](N2C=C(C(=O)O[Si](C)(C)C)C(O[Si](C)(C)C)=NC2=O)C[C@@H]1O[Si](C)(C)C | 2526.0 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,1TBDMS,isomer #1 | CC(C)(C)[Si](C)(C)OC[C@H]1O[C@H](N2C=C(C(=O)O)C(O)=NC2=O)C[C@@H]1O | 2812.9 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,1TBDMS,isomer #2 | CC(C)(C)[Si](C)(C)O[C@H]1C[C@@H](N2C=C(C(=O)O)C(O)=NC2=O)O[C@@H]1CO | 2822.6 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,1TBDMS,isomer #3 | CC(C)(C)[Si](C)(C)OC(=O)C1=CN([C@@H]2C[C@H](O)[C@@H](CO)O2)C(=O)N=C1O | 2782.4 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,1TBDMS,isomer #4 | CC(C)(C)[Si](C)(C)OC1=NC(=O)N([C@@H]2C[C@H](O)[C@@H](CO)O2)C=C1C(=O)O | 2761.9 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,2TBDMS,isomer #1 | CC(C)(C)[Si](C)(C)OC[C@H]1O[C@H](N2C=C(C(=O)O[Si](C)(C)C(C)(C)C)C(O)=NC2=O)C[C@@H]1O | 2966.7 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,2TBDMS,isomer #2 | CC(C)(C)[Si](C)(C)OC[C@H]1O[C@H](N2C=C(C(=O)O)C(O[Si](C)(C)C(C)(C)C)=NC2=O)C[C@@H]1O | 2966.6 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,2TBDMS,isomer #3 | CC(C)(C)[Si](C)(C)OC[C@H]1O[C@H](N2C=C(C(=O)O)C(O)=NC2=O)C[C@@H]1O[Si](C)(C)C(C)(C)C | 3011.6 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,2TBDMS,isomer #4 | CC(C)(C)[Si](C)(C)OC(=O)C1=CN([C@@H]2C[C@H](O[Si](C)(C)C(C)(C)C)[C@@H](CO)O2)C(=O)N=C1O | 3003.4 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,2TBDMS,isomer #5 | CC(C)(C)[Si](C)(C)OC1=NC(=O)N([C@@H]2C[C@H](O[Si](C)(C)C(C)(C)C)[C@@H](CO)O2)C=C1C(=O)O | 2989.3 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,2TBDMS,isomer #6 | CC(C)(C)[Si](C)(C)OC(=O)C1=CN([C@@H]2C[C@H](O)[C@@H](CO)O2)C(=O)N=C1O[Si](C)(C)C(C)(C)C | 2942.2 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,3TBDMS,isomer #1 | CC(C)(C)[Si](C)(C)OC[C@H]1O[C@H](N2C=C(C(=O)O[Si](C)(C)C(C)(C)C)C(O[Si](C)(C)C(C)(C)C)=NC2=O)C[C@@H]1O | 3146.7 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,3TBDMS,isomer #2 | CC(C)(C)[Si](C)(C)OC[C@H]1O[C@H](N2C=C(C(=O)O[Si](C)(C)C(C)(C)C)C(O)=NC2=O)C[C@@H]1O[Si](C)(C)C(C)(C)C | 3197.1 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,3TBDMS,isomer #3 | CC(C)(C)[Si](C)(C)OC[C@H]1O[C@H](N2C=C(C(=O)O)C(O[Si](C)(C)C(C)(C)C)=NC2=O)C[C@@H]1O[Si](C)(C)C(C)(C)C | 3190.6 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,3TBDMS,isomer #4 | CC(C)(C)[Si](C)(C)OC(=O)C1=CN([C@@H]2C[C@H](O[Si](C)(C)C(C)(C)C)[C@@H](CO)O2)C(=O)N=C1O[Si](C)(C)C(C)(C)C | 3184.9 | Semi standard non polar | 33892256 | 5-Carboxy-2'-deoxyuridine,4TBDMS,isomer #1 | CC(C)(C)[Si](C)(C)OC[C@H]1O[C@H](N2C=C(C(=O)O[Si](C)(C)C(C)(C)C)C(O[Si](C)(C)C(C)(C)C)=NC2=O)C[C@@H]1O[Si](C)(C)C(C)(C)C | 3368.4 | Semi standard non polar | 33892256 |
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Spectra |
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| GC-MS SpectraSpectrum Type | Description | Splash Key | Deposition Date | Source | View |
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Predicted GC-MS | Predicted GC-MS Spectrum - 5-Carboxy-2'-deoxyuridine GC-MS (Non-derivatized) - 70eV, Positive | splash10-0006-9150000000-2946360e0e25245c068c | 2017-09-20 | Wishart Lab | View Spectrum | Predicted GC-MS | Predicted GC-MS Spectrum - 5-Carboxy-2'-deoxyuridine GC-MS (4 TMS) - 70eV, Positive | splash10-0fdk-7630970000-117d98baf16585de770b | 2017-10-06 | Wishart Lab | View Spectrum | Predicted GC-MS | Predicted GC-MS Spectrum - 5-Carboxy-2'-deoxyuridine GC-MS (Non-derivatized) - 70eV, Positive | Not Available | 2021-10-12 | Wishart Lab | View Spectrum |
MS/MS SpectraSpectrum Type | Description | Splash Key | Deposition Date | Source | View |
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Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - 5-Carboxy-2'-deoxyuridine 10V, Positive-QTOF | splash10-0a4i-0900000000-8dcdbe4fcfcf7a6956cb | 2017-10-06 | Wishart Lab | View Spectrum | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - 5-Carboxy-2'-deoxyuridine 20V, Positive-QTOF | splash10-08g0-0930000000-9ee8a94b476d98a3a8c3 | 2017-10-06 | Wishart Lab | View Spectrum | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - 5-Carboxy-2'-deoxyuridine 40V, Positive-QTOF | splash10-0a4i-3900000000-9ecf758850c12eb66ff8 | 2017-10-06 | Wishart Lab | View Spectrum | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - 5-Carboxy-2'-deoxyuridine 10V, Negative-QTOF | splash10-00bi-0490000000-64cf18129521933ef7ba | 2017-10-06 | Wishart Lab | View Spectrum | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - 5-Carboxy-2'-deoxyuridine 20V, Negative-QTOF | splash10-053i-1930000000-c909ceba26c11bd00a6f | 2017-10-06 | Wishart Lab | View Spectrum | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - 5-Carboxy-2'-deoxyuridine 40V, Negative-QTOF | splash10-03di-3900000000-931397545a462bf56806 | 2017-10-06 | Wishart Lab | View Spectrum | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - 5-Carboxy-2'-deoxyuridine 10V, Positive-QTOF | splash10-0ab9-0940000000-cdfc60660b28e1eeee7d | 2021-10-12 | Wishart Lab | View Spectrum | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - 5-Carboxy-2'-deoxyuridine 20V, Positive-QTOF | splash10-000i-0900000000-9593d082c851d2af5c1a | 2021-10-12 | Wishart Lab | View Spectrum | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - 5-Carboxy-2'-deoxyuridine 40V, Positive-QTOF | splash10-06s9-1900000000-3c073d3e3469f89a92f0 | 2021-10-12 | Wishart Lab | View Spectrum | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - 5-Carboxy-2'-deoxyuridine 10V, Negative-QTOF | splash10-00di-0490000000-c1e941310a4160ade1f7 | 2021-10-12 | Wishart Lab | View Spectrum | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - 5-Carboxy-2'-deoxyuridine 20V, Negative-QTOF | splash10-08g0-1910000000-0de3c739cc69cb102f02 | 2021-10-12 | Wishart Lab | View Spectrum | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - 5-Carboxy-2'-deoxyuridine 40V, Negative-QTOF | splash10-000f-6900000000-eaec1bdad7fc9f8adb6b | 2021-10-12 | Wishart Lab | View Spectrum |
NMR SpectraSpectrum Type | Description | Deposition Date | Source | View |
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Predicted 1D NMR | 13C NMR Spectrum (1D, 100 MHz, D2O, predicted) | 2021-09-24 | Wishart Lab | View Spectrum | Predicted 1D NMR | 1H NMR Spectrum (1D, 100 MHz, D2O, predicted) | 2021-09-24 | Wishart Lab | View Spectrum | Predicted 1D NMR | 13C NMR Spectrum (1D, 1000 MHz, D2O, predicted) | 2021-09-24 | Wishart Lab | View Spectrum | Predicted 1D NMR | 1H NMR Spectrum (1D, 1000 MHz, D2O, predicted) | 2021-09-24 | Wishart Lab | View Spectrum | Predicted 1D NMR | 13C NMR Spectrum (1D, 200 MHz, D2O, predicted) | 2021-09-24 | Wishart Lab | View Spectrum | Predicted 1D NMR | 1H NMR Spectrum (1D, 200 MHz, D2O, predicted) | 2021-09-24 | Wishart Lab | View Spectrum | Predicted 1D NMR | 13C NMR Spectrum (1D, 300 MHz, D2O, predicted) | 2021-09-24 | Wishart Lab | View Spectrum | Predicted 1D NMR | 1H NMR Spectrum (1D, 300 MHz, D2O, predicted) | 2021-09-24 | Wishart Lab | View Spectrum | Predicted 1D NMR | 13C NMR Spectrum (1D, 400 MHz, D2O, predicted) | 2021-09-24 | Wishart Lab | View Spectrum | Predicted 1D NMR | 1H NMR Spectrum (1D, 400 MHz, D2O, predicted) | 2021-09-24 | Wishart Lab | View Spectrum | Predicted 1D NMR | 13C NMR Spectrum (1D, 500 MHz, D2O, predicted) | 2021-09-24 | Wishart Lab | View Spectrum | Predicted 1D NMR | 1H NMR Spectrum (1D, 500 MHz, D2O, predicted) | 2021-09-24 | Wishart Lab | View Spectrum | Predicted 1D NMR | 13C NMR Spectrum (1D, 600 MHz, D2O, predicted) | 2021-09-24 | Wishart Lab | View Spectrum | Predicted 1D NMR | 1H NMR Spectrum (1D, 600 MHz, D2O, predicted) | 2021-09-24 | Wishart Lab | View Spectrum | Predicted 1D NMR | 13C NMR Spectrum (1D, 700 MHz, D2O, predicted) | 2021-09-24 | Wishart Lab | View Spectrum | Predicted 1D NMR | 1H NMR Spectrum (1D, 700 MHz, D2O, predicted) | 2021-09-24 | Wishart Lab | View Spectrum | Predicted 1D NMR | 13C NMR Spectrum (1D, 800 MHz, D2O, predicted) | 2021-09-24 | Wishart Lab | View Spectrum | Predicted 1D NMR | 1H NMR Spectrum (1D, 800 MHz, D2O, predicted) | 2021-09-24 | Wishart Lab | View Spectrum | Predicted 1D NMR | 13C NMR Spectrum (1D, 900 MHz, D2O, predicted) | 2021-09-24 | Wishart Lab | View Spectrum | Predicted 1D NMR | 1H NMR Spectrum (1D, 900 MHz, D2O, predicted) | 2021-09-24 | Wishart Lab | View Spectrum |
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Biological Properties |
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Cellular Locations | |
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Biospecimen Locations | |
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Tissue Locations | |
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Pathways | |
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Normal Concentrations |
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Blood | Expected but not Quantified | Not Quantified | Not Available | Not Available | Normal | | details | Urine | Expected but not Quantified | Not Quantified | Not Available | Not Available | Normal | | details |
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Abnormal Concentrations |
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| Not Available |
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Associated Disorders and Diseases |
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Disease References | None |
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Associated OMIM IDs | None |
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External Links |
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DrugBank ID | Not Available |
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Phenol Explorer Compound ID | Not Available |
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FooDB ID | Not Available |
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KNApSAcK ID | Not Available |
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Chemspider ID | Not Available |
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KEGG Compound ID | Not Available |
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BioCyc ID | Not Available |
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BiGG ID | Not Available |
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Wikipedia Link | Not Available |
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METLIN ID | Not Available |
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PubChem Compound | 189023 |
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PDB ID | Not Available |
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ChEBI ID | Not Available |
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Food Biomarker Ontology | Not Available |
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VMH ID | Not Available |
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MarkerDB ID | Not Available |
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Good Scents ID | Not Available |
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References |
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Synthesis Reference | Not Available |
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Material Safety Data Sheet (MSDS) | Not Available |
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General References | Not Available |
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