| Record Information |
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| Version | 5.0 |
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| Status | Expected but not Quantified |
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| Creation Date | 2017-09-09 07:43:01 UTC |
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| Update Date | 2022-11-30 19:26:33 UTC |
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| HMDB ID | HMDB0116282 |
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| Secondary Accession Numbers | None |
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| Metabolite Identification |
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| Common Name | CDP-DG(i-19:0/a-25:0) |
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| Description | CDP-DG(i-19:0/a-25:0) is a cytidine diphosphate diacylglycerol or CDP-diacylglycerol (CDP-DG). CDP-diacylglycerol is an important branchpoint intermediate in eukaryotic phospholipid biosynthesis and could be a key regulatory molecule in phospholipid metabolism. It is a glycerophospholipid in which a cytidine diphosphate moiety occupies a glycerol substitution site. As is the case with diacylglycerols, CDP-diacylglycerols can have many different combinations of fatty acids of varying lengths and saturation attached at the C-1 and C-2 positions. Fatty acids containing 16, 18 and 20 carbons are the most common. CDP-DG(i-19:0/a-25:0), in particular, consists of one chain of isononadecanoic acid at the C-1 position and one chain of anteisopentacosanoic acid at the C-2 position. Cytidine diphosphate diacylglycerols are rarely noticed in analyses of lipid compositions of tissues, as they are present is such small amounts (perhaps only 0.05% or so of the total phospholipids). |
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| Structure | [H][C@@](COC(=O)CCCCCCCCCCCCCCCC(C)C)(COP(O)(=O)OP(O)(=O)OC[C@H]1O[C@H](C(O)[C@H]1O)N1C=CC(N)=NC1=O)OC(=O)CCCCCCCCCCCCCCCCCCCCC(C)CC InChI=1S/C56H105N3O15P2/c1-5-47(4)38-34-30-26-22-18-14-10-8-6-7-9-11-15-20-24-28-32-36-40-52(61)72-48(43-69-51(60)39-35-31-27-23-19-16-12-13-17-21-25-29-33-37-46(2)3)44-70-75(65,66)74-76(67,68)71-45-49-53(62)54(63)55(73-49)59-42-41-50(57)58-56(59)64/h41-42,46-49,53-55,62-63H,5-40,43-45H2,1-4H3,(H,65,66)(H,67,68)(H2,57,58,64)/t47?,48-,49-,53+,54?,55-/m1/s1 |
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| Synonyms | | Value | Source |
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| 1-Isononadecanoyl-2-anteisopentacosanoyl-sn-glycero-3-CDP | HMDB | | 1-Isononadecanoyl-2-anteisopentacosanoyl-sn-glycero-3-cytidine-5'-diphosphate | HMDB | | CDP-DG(44:0) | HMDB | | CDP-Diacylglycerol(I-19:0/A-25:0) | HMDB | | CDP-Diacylglycerol(44:0) | HMDB | | {[(2R,3R,5R)-3,4-dihydroxy-5-(2-hydroxy-4-imino-1,4-dihydropyrimidin-1-yl)oxolan-2-yl]methoxy}({hydroxy[(2R)-3-[(17-methyloctadecanoyl)oxy]-2-[(22-methyltetracosanoyl)oxy]propoxy]phosphoryl}oxy)phosphinate | HMDB | | CDP-DG(i-19:0/a-25:0) | SMPDB |
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| Chemical Formula | C56H105N3O15P2 |
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| Average Molecular Weight | 1122.41 |
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| Monoisotopic Molecular Weight | 1121.702093689 |
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| IUPAC Name | {[(2R,3R,5R)-5-(4-amino-2-oxo-1,2-dihydropyrimidin-1-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}({hydroxy[(2R)-3-[(17-methyloctadecanoyl)oxy]-2-[(22-methyltetracosanoyl)oxy]propoxy]phosphoryl}oxy)phosphinic acid |
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| Traditional Name | [(2R,3R,5R)-5-(4-amino-2-oxopyrimidin-1-yl)-3,4-dihydroxyoxolan-2-yl]methoxy([hydroxy((2R)-3-[(17-methyloctadecanoyl)oxy]-2-[(22-methyltetracosanoyl)oxy]propoxy)phosphoryl]oxy)phosphinic acid |
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| CAS Registry Number | Not Available |
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| SMILES | [H][C@@](COC(=O)CCCCCCCCCCCCCCCC(C)C)(COP(O)(=O)OP(O)(=O)OC[C@H]1O[C@H](C(O)[C@H]1O)N1C=CC(N)=NC1=O)OC(=O)CCCCCCCCCCCCCCCCCCCCC(C)CC |
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| InChI Identifier | InChI=1S/C56H105N3O15P2/c1-5-47(4)38-34-30-26-22-18-14-10-8-6-7-9-11-15-20-24-28-32-36-40-52(61)72-48(43-69-51(60)39-35-31-27-23-19-16-12-13-17-21-25-29-33-37-46(2)3)44-70-75(65,66)74-76(67,68)71-45-49-53(62)54(63)55(73-49)59-42-41-50(57)58-56(59)64/h41-42,46-49,53-55,62-63H,5-40,43-45H2,1-4H3,(H,65,66)(H,67,68)(H2,57,58,64)/t47?,48-,49-,53+,54?,55-/m1/s1 |
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| InChI Key | KSSNMWJCARZUAT-VSHPWEHDSA-N |
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| Chemical Taxonomy |
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| Description | Belongs to the class of organic compounds known as cdp-diacylglycerols. These are glycerolipids containing a diacylglycerol, with a cytidine diphosphate attached to the oxygen O1 or O2 of the glycerol part. |
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| Kingdom | Organic compounds |
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| Super Class | Lipids and lipid-like molecules |
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| Class | Glycerophospholipids |
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| Sub Class | CDP-glycerols |
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| Direct Parent | CDP-diacylglycerols |
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| Alternative Parents | |
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| Substituents | - Cdp-diacylglycerol
- Pyrimidine ribonucleoside diphosphate
- Diacyl-glycerol-3-pyrophosphate
- Pentose phosphate
- Pentose-5-phosphate
- Glycosyl compound
- N-glycosyl compound
- Monosaccharide phosphate
- Organic pyrophosphate
- Fatty acid ester
- Monoalkyl phosphate
- Hydroxypyrimidine
- Dicarboxylic acid or derivatives
- Fatty acyl
- Alkyl phosphate
- Hydropyrimidine
- Pyrimidine
- Phosphoric acid ester
- Monosaccharide
- Organic phosphoric acid derivative
- Heteroaromatic compound
- Tetrahydrofuran
- Carboxylic acid ester
- 1,2-diol
- Secondary alcohol
- Oxacycle
- Organoheterocyclic compound
- Azacycle
- Carboxylic acid derivative
- Organopnictogen compound
- Organic oxide
- Alcohol
- Organic nitrogen compound
- Hydrocarbon derivative
- Carbonyl group
- Organic oxygen compound
- Organooxygen compound
- Organonitrogen 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 | |
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| Role | Not Available |
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| Physical Properties |
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| State | Solid |
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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 SectionsPredicted Retention Times Underivatized| Chromatographic Method | Retention Time | Reference |
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| Measured using a Waters Acquity ultraperformance liquid chromatography (UPLC) ethylene-bridged hybrid (BEH) C18 column (100 mm × 2.1 mm; 1.7 μmparticle diameter). Predicted by Afia on May 17, 2022. Predicted by Afia on May 17, 2022. | 10.07 minutes | 32390414 | | Predicted by Siyang on May 30, 2022 | 31.4235 minutes | 33406817 | | Predicted by Siyang using ReTip algorithm on June 8, 2022 | 3.08 minutes | 32390414 | | Fem_Long = Waters ACQUITY UPLC HSS T3 C18 with Water:MeOH and 0.1% Formic Acid | 5851.9 seconds | 40023050 | | Fem_Lipids = Ascentis Express C18 with (60:40 water:ACN):(90:10 IPA:ACN) and 10mM NH4COOH + 0.1% Formic Acid | 200.4 seconds | 40023050 | | Life_Old = Waters ACQUITY UPLC BEH C18 with Water:(20:80 acetone:ACN) and 0.1% Formic Acid | 402.5 seconds | 40023050 | | Life_New = RP Waters ACQUITY UPLC HSS T3 C18 with Water:(30:70 MeOH:ACN) and 0.1% Formic Acid | 178.8 seconds | 40023050 | | RIKEN = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid | 1220.1 seconds | 40023050 | | Eawag_XBridgeC18 = XBridge C18 3.5u 2.1x50 mm with Water:MeOH and 0.1% Formic Acid | 1855.7 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 | 1712.0 seconds | 40023050 | | HILIC_BDD_2 = Merck SeQuant ZIC-HILIC with ACN(0.1% formic acid):water(16 mM ammonium formate) | 270.3 seconds | 40023050 | | UniToyama_Atlantis = RP Waters Atlantis T3 (2.1 x 150 mm, 5 um) with ACN:Water and 0.1% Formic Acid | 3347.9 seconds | 40023050 | | BDD_C18 = Hypersil Gold 1.9µm C18 with Water:ACN and 0.1% Formic Acid | 1385.4 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 | 3123.5 seconds | 40023050 | | SNU_RIKEN_POS = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid | 1326.1 seconds | 40023050 | | RPMMFDA = Waters ACQUITY UPLC BEH C18 with Water:ACN and 0.1% Formic Acid | 800.5 seconds | 40023050 | | MTBLS87 = Merck SeQuant ZIC-pHILIC column with ACN:Water and :ammonium carbonate | 274.1 seconds | 40023050 | | KI_GIAR_zic_HILIC_pH2_7 = Merck SeQuant ZIC-HILIC with ACN:Water and 0.1% FA | 391.7 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 | 10.0 seconds | 40023050 |
Predicted Kovats Retention IndicesNot Available |
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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 - CDP-DG(i-19:0/a-25:0) GC-MS (Non-derivatized) - 70eV, Positive | Not Available | 2021-10-13 | 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 - CDP-DG(i-19:0/a-25:0) 10V, Positive-QTOF | splash10-03di-0911000100-f5dd76b0fd1562758f05 | 2019-02-22 | Wishart Lab | View Spectrum | | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - CDP-DG(i-19:0/a-25:0) 20V, Positive-QTOF | splash10-03di-1911000110-22953c6ec135643aeb0f | 2019-02-22 | Wishart Lab | View Spectrum | | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - CDP-DG(i-19:0/a-25:0) 40V, Positive-QTOF | splash10-03di-4912000000-fb246f2fde301133f4b8 | 2019-02-22 | Wishart Lab | View Spectrum | | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - CDP-DG(i-19:0/a-25:0) 10V, Negative-QTOF | splash10-0bvj-1963000110-6f00b50969321b6d8a8b | 2019-02-23 | Wishart Lab | View Spectrum | | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - CDP-DG(i-19:0/a-25:0) 20V, Negative-QTOF | splash10-01ta-6894110020-7f521446ab59ba75ac3c | 2019-02-23 | Wishart Lab | View Spectrum | | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - CDP-DG(i-19:0/a-25:0) 40V, Negative-QTOF | splash10-0bvi-5911000000-d78b1980fea786337c81 | 2019-02-23 | Wishart Lab | View Spectrum | | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - CDP-DG(i-19:0/a-25:0) 10V, Positive-QTOF | splash10-00di-9600000100-ecd6b23fdb34d7126935 | 2021-09-22 | Wishart Lab | View Spectrum | | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - CDP-DG(i-19:0/a-25:0) 20V, Positive-QTOF | splash10-0a4i-9100000003-7449920e461ee0a4d7f7 | 2021-09-22 | Wishart Lab | View Spectrum | | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - CDP-DG(i-19:0/a-25:0) 40V, Positive-QTOF | splash10-00di-1015690000-fe6ca42124366f82689b | 2021-09-22 | Wishart Lab | View Spectrum | | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - CDP-DG(i-19:0/a-25:0) 10V, Negative-QTOF | splash10-00di-0900000100-112e295dadb79bf2248f | 2021-09-22 | Wishart Lab | View Spectrum | | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - CDP-DG(i-19:0/a-25:0) 20V, Negative-QTOF | splash10-004i-9122500200-cd800cff1d02edfb1737 | 2021-09-22 | Wishart Lab | View Spectrum | | Predicted LC-MS/MS | Predicted LC-MS/MS Spectrum - CDP-DG(i-19:0/a-25:0) 40V, Negative-QTOF | splash10-0nnc-6419120200-65616a90a7038121be5d | 2021-09-22 | Wishart Lab | View Spectrum |
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