MiMeDB: Showing metabocard for CDP-DG(10:0(3-OH)/10:0) (MMDBc0032548)

Record Information

Version

1.0

Status

Detected and Quantified

Creation Date

2021-11-18 02:21:02 UTC

Update Date

2022-08-31 18:44:50 UTC

Metabolite ID

MMDBc0032548

Metabolite Identification

Common Name

CDP-DG(10:0(3-OH)/10:0)

Description

CDP-DG(10:0(3-OH)/10:0) belongs to the family of CDP-diacylglycerols. It is a glycerophospholipid containing a diacylglycerol, with a cytidine diphosphate attached to the oxygen O1 or O2 of the glycerol part. As is the case with diacylglycerols, phosphatidylserines can have many different combinations of fatty acids of varying lengths and saturation attached to the C-1 and C-2 atoms. CDP-DG(10:0(3-OH)/10:0), in particular, consists of one 3-hydroxydecanoyl chain to C-1 atom, and one decanoyl to the C-2 atom. In E. coli glycerophospholipid metabolism, The biosynthesis of CDP-diacylglycerol (CDP-DG) involves condensation of phosphatidic acid (PA) and cytidine triphosphate, with elimination of pyrophosphate, catalysed by the enzyme CDP-diacylglycerol synthase. The resulting CDP-diacylglycerol can be utilized immediately for the synthesis of phosphatidylglycerol (PG), and thence cardiolipin (CL), and of phosphatidylinositol (PI). CDP-DG(10:0(3-OH)/10:0) is also a substrate of CDP-diacylglycerol pyrophosphatase. It is involved in CDP-diacylglycerol degradation pathway.

Structure

MOL SDF PDB SMILES InChI

CDP-DG(10:0(3-OH)/10:0)
  Mrv1652308101904292D          

 54 55  0  0  1  0            999 V2000
   17.4446   -4.0156    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   16.4834   -4.5705    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   15.5222   -4.0156    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   18.4057   -4.5705    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   14.5609   -4.5705    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   15.7333   -5.6805    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   17.3202   -5.7228    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
   19.4763   -4.2071    0.0000 P   0  0  0  0  0  0  0  0  0  0  0  0
   19.4763   -5.3366    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   20.8022   -4.5410    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   19.4763   -3.1856    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   21.8727   -4.1776    0.0000 P   0  0  0  0  0  0  0  0  0  0  0  0
   21.8727   -5.3071    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   23.1986   -4.5115    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   21.8727   -3.1562    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   25.1583   -6.7484    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   26.8299   -6.7484    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   27.7364   -5.8701    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   26.0544   -5.2080    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   24.1052   -5.8606    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   26.8350   -7.5482    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   25.1522   -7.5599    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   24.1011   -5.0356    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   28.4113   -3.3821    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   28.4113   -4.2071    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   27.6968   -2.9696    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   27.6968   -4.6196    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   26.9824   -3.3821    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   26.9824   -4.2071    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   27.6969   -2.1446    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   29.1112   -4.5017    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   13.8465   -4.1580    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   13.8465   -3.3866    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   13.1324   -4.5711    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   12.4182   -4.1580    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   12.4182   -3.3866    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   11.7041   -4.5711    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   10.9900   -4.1580    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   10.2759   -4.5711    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    9.5618   -4.1580    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    8.8476   -4.5711    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    8.1335   -4.1580    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.4194   -4.5711    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   15.0189   -6.0930    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   15.0189   -6.8644    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   14.3048   -5.6799    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   13.5906   -6.0930    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   12.8765   -5.6799    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   12.1624   -6.0930    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   11.4483   -5.6799    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   10.7342   -6.0930    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   10.0201   -5.6799    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    9.3059   -6.0930    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    8.5918   -5.6799    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  2  1  1  0  0  0  0
  2  6  1  0  0  0  0
  2  7  1  1  0  0  0
  3  2  1  0  0  0  0
  4  1  1  0  0  0  0
  5  3  1  0  0  0  0
  8  4  1  0  0  0  0
  8  9  1  0  0  0  0
  8 10  1  0  0  0  0
  8 11  2  0  0  0  0
 12 10  1  0  0  0  0
 12 13  1  0  0  0  0
 12 14  1  0  0  0  0
 12 15  2  0  0  0  0
 14 23  1  0  0  0  0
 16 17  1  0  0  0  0
 16 22  1  1  0  0  0
 18 19  1  0  0  0  0
 18 17  1  0  0  0  0
 18 27  1  1  0  0  0
 19 20  1  0  0  0  0
 20 16  1  0  0  0  0
 20 23  1  1  0  0  0
 21 17  1  0  0  0  0
 24 25  1  0  0  0  0
 24 26  2  0  0  0  0
 25 27  1  0  0  0  0
 25 31  2  0  0  0  0
 26 28  1  0  0  0  0
 26 30  1  0  0  0  0
 27 29  1  0  0  0  0
 28 29  2  0  0  0  0
 32  5  1  0  0  0  0
 32 33  2  0  0  0  0
 32 34  1  0  0  0  0
 34 35  1  0  0  0  0
 35 36  1  0  0  0  0
 35 37  1  0  0  0  0
 37 38  1  0  0  0  0
 38 39  1  0  0  0  0
 39 40  1  0  0  0  0
 40 41  1  0  0  0  0
 41 42  1  0  0  0  0
 42 43  1  0  0  0  0
 44  6  1  0  0  0  0
 44 45  2  0  0  0  0
 44 46  1  0  0  0  0
 46 47  1  0  0  0  0
 47 48  1  0  0  0  0
 48 49  1  0  0  0  0
 49 50  1  0  0  0  0
 50 51  1  0  0  0  0
 51 52  1  0  0  0  0
 52 53  1  0  0  0  0
 53 54  1  0  0  0  0
M  END

CDP-DG(10:0(3-OH)/10:0)
  Mrv1652308101904292D          

 54 55  0  0  1  0            999 V2000
   17.4446   -4.0156    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   16.4834   -4.5705    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   15.5222   -4.0156    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   18.4057   -4.5705    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   14.5609   -4.5705    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   15.7333   -5.6805    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   17.3202   -5.7228    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
   19.4763   -4.2071    0.0000 P   0  0  0  0  0  0  0  0  0  0  0  0
   19.4763   -5.3366    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   20.8022   -4.5410    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   19.4763   -3.1856    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   21.8727   -4.1776    0.0000 P   0  0  0  0  0  0  0  0  0  0  0  0
   21.8727   -5.3071    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   23.1986   -4.5115    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   21.8727   -3.1562    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   25.1583   -6.7484    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   26.8299   -6.7484    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   27.7364   -5.8701    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   26.0544   -5.2080    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   24.1052   -5.8606    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   26.8350   -7.5482    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   25.1522   -7.5599    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   24.1011   -5.0356    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   28.4113   -3.3821    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   28.4113   -4.2071    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   27.6968   -2.9696    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   27.6968   -4.6196    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   26.9824   -3.3821    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   26.9824   -4.2071    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   27.6969   -2.1446    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   29.1112   -4.5017    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   13.8465   -4.1580    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   13.8465   -3.3866    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   13.1324   -4.5711    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   12.4182   -4.1580    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   12.4182   -3.3866    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   11.7041   -4.5711    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   10.9900   -4.1580    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   10.2759   -4.5711    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    9.5618   -4.1580    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    8.8476   -4.5711    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    8.1335   -4.1580    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.4194   -4.5711    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   15.0189   -6.0930    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   15.0189   -6.8644    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   14.3048   -5.6799    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   13.5906   -6.0930    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   12.8765   -5.6799    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   12.1624   -6.0930    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   11.4483   -5.6799    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   10.7342   -6.0930    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   10.0201   -5.6799    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    9.3059   -6.0930    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    8.5918   -5.6799    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  2  1  1  0  0  0  0
  2  6  1  0  0  0  0
  2  7  1  1  0  0  0
  3  2  1  0  0  0  0
  4  1  1  0  0  0  0
  5  3  1  0  0  0  0
  8  4  1  0  0  0  0
  8  9  1  0  0  0  0
  8 10  1  0  0  0  0
  8 11  2  0  0  0  0
 12 10  1  0  0  0  0
 12 13  1  0  0  0  0
 12 14  1  0  0  0  0
 12 15  2  0  0  0  0
 14 23  1  0  0  0  0
 16 17  1  0  0  0  0
 16 22  1  1  0  0  0
 18 19  1  0  0  0  0
 18 17  1  0  0  0  0
 18 27  1  1  0  0  0
 19 20  1  0  0  0  0
 20 16  1  0  0  0  0
 20 23  1  1  0  0  0
 21 17  1  0  0  0  0
 24 25  1  0  0  0  0
 24 26  2  0  0  0  0
 25 27  1  0  0  0  0
 25 31  2  0  0  0  0
 26 28  1  0  0  0  0
 26 30  1  0  0  0  0
 27 29  1  0  0  0  0
 28 29  2  0  0  0  0
 32  5  1  0  0  0  0
 32 33  2  0  0  0  0
 32 34  1  0  0  0  0
 34 35  1  0  0  0  0
 35 36  1  0  0  0  0
 35 37  1  0  0  0  0
 37 38  1  0  0  0  0
 38 39  1  0  0  0  0
 39 40  1  0  0  0  0
 40 41  1  0  0  0  0
 41 42  1  0  0  0  0
 42 43  1  0  0  0  0
 44  6  1  0  0  0  0
 44 45  2  0  0  0  0
 44 46  1  0  0  0  0
 46 47  1  0  0  0  0
 47 48  1  0  0  0  0
 48 49  1  0  0  0  0
 49 50  1  0  0  0  0
 50 51  1  0  0  0  0
 51 52  1  0  0  0  0
 52 53  1  0  0  0  0
 53 54  1  0  0  0  0
M  END
> <DATABASE_ID>
MMDBc0032548

> <DATABASE_NAME>
MIME

> <SMILES>
[H][C@@](COC(=O)CC(O)CCCCCCC)(COP(O)(=O)OP(O)(=O)OC[C@H]1O[C@H](C(O)[C@H]1O)N1C=CC(N)=NC1=O)OC(=O)CCCCCCCCC

> <INCHI_IDENTIFIER>
InChI=1S/C32H57N3O16P2/c1-3-5-7-9-10-12-14-16-27(37)49-24(20-46-28(38)19-23(36)15-13-11-8-6-4-2)21-47-52(42,43)51-53(44,45)48-22-25-29(39)30(40)31(50-25)35-18-17-26(33)34-32(35)41/h17-18,23-25,29-31,36,39-40H,3-16,19-22H2,1-2H3,(H,42,43)(H,44,45)(H2,33,34,41)/t23?,24-,25-,29+,30?,31-/m1/s1

> <INCHI_KEY>
WFGXESJRVZISAW-WCNNHDROSA-N

> <FORMULA>
C32H57N3O16P2

> <MOLECULAR_WEIGHT>
801.761

> <EXACT_MASS>
801.321406763

> <JCHEM_ACCEPTOR_COUNT>
13

> <JCHEM_ATOM_COUNT>
110

> <JCHEM_AVERAGE_POLARIZABILITY>
81.13072223906923

> <JCHEM_BIOAVAILABILITY>
0

> <JCHEM_DONOR_COUNT>
6

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
{[(2R,3R,5R)-5-(4-amino-2-oxo-1,2-dihydropyrimidin-1-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}({[(2R)-2-(decanoyloxy)-3-[(3-hydroxydecanoyl)oxy]propoxy](hydroxy)phosphoryl}oxy)phosphinic acid

> <ALOGPS_LOGP>
1.89

> <JCHEM_LOGP>
2.991114731666665

> <ALOGPS_LOGS>
-3.03

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-2

> <JCHEM_PKA>
1.8631673657139758

> <JCHEM_PKA_STRONGEST_ACIDIC>
-0.03198994044173453

> <JCHEM_PKA_STRONGEST_BASIC>
3.271625553603594

> <JCHEM_POLAR_SURFACE_AREA>
283.49999999999994

> <JCHEM_REFRACTIVITY>
186.51400000000004

> <JCHEM_ROTATABLE_BOND_COUNT>
30

> <JCHEM_RULE_OF_FIVE>
0

> <ALOGPS_SOLUBILITY>
7.48e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
[(2R,3R,5R)-5-(4-amino-2-oxopyrimidin-1-yl)-3,4-dihydroxyoxolan-2-yl]methoxy([(2R)-2-(decanoyloxy)-3-[(3-hydroxydecanoyl)oxy]propoxy(hydroxy)phosphoryl]oxy)phosphinic acid

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 10-AUG-19   NONE
TITLE     NULL                                                        
COMPND    MOLECULE: CDP-DG(10:0(3-OH)/10:0)                           
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   10-AUG-19         0                                  
HETATM    1  C   UNK     0      32.563  -7.496   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      30.769  -8.532   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      28.975  -7.496   0.000  0.00  0.00           C+0
HETATM    4  O   UNK     0      34.357  -8.532   0.000  0.00  0.00           O+0
HETATM    5  O   UNK     0      27.180  -8.532   0.000  0.00  0.00           O+0
HETATM    6  O   UNK     0      29.369 -10.604   0.000  0.00  0.00           O+0
HETATM    7  H   UNK     0      32.331 -10.683   0.000  0.00  0.00           H+0
HETATM    8  P   UNK     0      36.356  -7.853   0.000  0.00  0.00           P+0
HETATM    9  O   UNK     0      36.356  -9.962   0.000  0.00  0.00           O+0
HETATM   10  O   UNK     0      38.831  -8.476   0.000  0.00  0.00           O+0
HETATM   11  O   UNK     0      36.356  -5.947   0.000  0.00  0.00           O+0
HETATM   12  P   UNK     0      40.829  -7.798   0.000  0.00  0.00           P+0
HETATM   13  O   UNK     0      40.829  -9.907   0.000  0.00  0.00           O+0
HETATM   14  O   UNK     0      43.304  -8.422   0.000  0.00  0.00           O+0
HETATM   15  O   UNK     0      40.829  -5.892   0.000  0.00  0.00           O+0
HETATM   16  C   UNK     0      46.962 -12.597   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0      50.083 -12.597   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0      51.775 -10.957   0.000  0.00  0.00           C+0
HETATM   19  O   UNK     0      48.635  -9.722   0.000  0.00  0.00           O+0
HETATM   20  C   UNK     0      44.996 -10.940   0.000  0.00  0.00           C+0
HETATM   21  O   UNK     0      50.092 -14.090   0.000  0.00  0.00           O+0
HETATM   22  O   UNK     0      46.951 -14.112   0.000  0.00  0.00           O+0
HETATM   23  C   UNK     0      44.989  -9.400   0.000  0.00  0.00           C+0
HETATM   24  N   UNK     0      53.034  -6.313   0.000  0.00  0.00           N+0
HETATM   25  C   UNK     0      53.034  -7.853   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0      51.701  -5.543   0.000  0.00  0.00           C+0
HETATM   27  N   UNK     0      51.701  -8.623   0.000  0.00  0.00           N+0
HETATM   28  C   UNK     0      50.367  -6.313   0.000  0.00  0.00           C+0
HETATM   29  C   UNK     0      50.367  -7.853   0.000  0.00  0.00           C+0
HETATM   30  N   UNK     0      51.701  -4.003   0.000  0.00  0.00           N+0
HETATM   31  O   UNK     0      54.341  -8.403   0.000  0.00  0.00           O+0
HETATM   32  C   UNK     0      25.847  -7.762   0.000  0.00  0.00           C+0
HETATM   33  O   UNK     0      25.847  -6.322   0.000  0.00  0.00           O+0
HETATM   34  C   UNK     0      24.514  -8.533   0.000  0.00  0.00           C+0
HETATM   35  C   UNK     0      23.181  -7.762   0.000  0.00  0.00           C+0
HETATM   36  O   UNK     0      23.181  -6.322   0.000  0.00  0.00           O+0
HETATM   37  C   UNK     0      21.848  -8.533   0.000  0.00  0.00           C+0
HETATM   38  C   UNK     0      20.515  -7.762   0.000  0.00  0.00           C+0
HETATM   39  C   UNK     0      19.182  -8.533   0.000  0.00  0.00           C+0
HETATM   40  C   UNK     0      17.849  -7.762   0.000  0.00  0.00           C+0
HETATM   41  C   UNK     0      16.516  -8.533   0.000  0.00  0.00           C+0
HETATM   42  C   UNK     0      15.183  -7.762   0.000  0.00  0.00           C+0
HETATM   43  C   UNK     0      13.850  -8.533   0.000  0.00  0.00           C+0
HETATM   44  C   UNK     0      28.035 -11.374   0.000  0.00  0.00           C+0
HETATM   45  O   UNK     0      28.035 -12.814   0.000  0.00  0.00           O+0
HETATM   46  C   UNK     0      26.702 -10.602   0.000  0.00  0.00           C+0
HETATM   47  C   UNK     0      25.369 -11.374   0.000  0.00  0.00           C+0
HETATM   48  C   UNK     0      24.036 -10.602   0.000  0.00  0.00           C+0
HETATM   49  C   UNK     0      22.703 -11.374   0.000  0.00  0.00           C+0
HETATM   50  C   UNK     0      21.370 -10.602   0.000  0.00  0.00           C+0
HETATM   51  C   UNK     0      20.037 -11.374   0.000  0.00  0.00           C+0
HETATM   52  C   UNK     0      18.704 -10.602   0.000  0.00  0.00           C+0
HETATM   53  C   UNK     0      17.371 -11.374   0.000  0.00  0.00           C+0
HETATM   54  C   UNK     0      16.038 -10.602   0.000  0.00  0.00           C+0
CONECT    1    2    4                                                       
CONECT    2    1    6    7    3                                             
CONECT    3    2    5                                                       
CONECT    4    1    8                                                       
CONECT    5    3   32                                                       
CONECT    6    2   44                                                       
CONECT    7    2                                                            
CONECT    8    4    9   10   11                                             
CONECT    9    8                                                            
CONECT   10    8   12                                                       
CONECT   11    8                                                            
CONECT   12   10   13   14   15                                             
CONECT   13   12                                                            
CONECT   14   12   23                                                       
CONECT   15   12                                                            
CONECT   16   17   22   20                                                  
CONECT   17   16   18   21                                                  
CONECT   18   19   17   27                                                  
CONECT   19   18   20                                                       
CONECT   20   19   16   23                                                  
CONECT   21   17                                                            
CONECT   22   16                                                            
CONECT   23   14   20                                                       
CONECT   24   25   26                                                       
CONECT   25   24   27   31                                                  
CONECT   26   24   28   30                                                  
CONECT   27   18   25   29                                                  
CONECT   28   26   29                                                       
CONECT   29   27   28                                                       
CONECT   30   26                                                            
CONECT   31   25                                                            
CONECT   32    5   33   34                                                  
CONECT   33   32                                                            
CONECT   34   32   35                                                       
CONECT   35   34   36   37                                                  
CONECT   36   35                                                            
CONECT   37   35   38                                                       
CONECT   38   37   39                                                       
CONECT   39   38   40                                                       
CONECT   40   39   41                                                       
CONECT   41   40   42                                                       
CONECT   42   41   43                                                       
CONECT   43   42                                                            
CONECT   44    6   45   46                                                  
CONECT   45   44                                                            
CONECT   46   44   47                                                       
CONECT   47   46   48                                                       
CONECT   48   47   49                                                       
CONECT   49   48   50                                                       
CONECT   50   49   51                                                       
CONECT   51   50   52                                                       
CONECT   52   51   53                                                       
CONECT   53   52   54                                                       
CONECT   54   53                                                            
MASTER        0    0    0    0    0    0    0    0   54    0  110    0
END

Synonyms

Not Available

Molecular Formula

C₃₂H₅₇N₃O₁₆P₂

Average Mass

801.761

Monoisotopic Mass

801.321406763

IUPAC Name

{[(2R,3R,5R)-5-(4-amino-2-oxo-1,2-dihydropyrimidin-1-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}({[(2R)-2-(decanoyloxy)-3-[(3-hydroxydecanoyl)oxy]propoxy](hydroxy)phosphoryl}oxy)phosphinic acid

Traditional Name

[(2R,3R,5R)-5-(4-amino-2-oxopyrimidin-1-yl)-3,4-dihydroxyoxolan-2-yl]methoxy([(2R)-2-(decanoyloxy)-3-[(3-hydroxydecanoyl)oxy]propoxy(hydroxy)phosphoryl]oxy)phosphinic acid

CAS Registry Number

Not Available

SMILES

[H][C@@](COC(=O)CC(O)CCCCCCC)(COP(O)(=O)OP(O)(=O)OC[C@H]1O[C@H](C(O)[C@H]1O)N1C=CC(N)=NC1=O)OC(=O)CCCCCCCCC

InChI Identifier

InChI=1S/C32H57N3O16P2/c1-3-5-7-9-10-12-14-16-27(37)49-24(20-46-28(38)19-23(36)15-13-11-8-6-4-2)21-47-52(42,43)51-53(44,45)48-22-25-29(39)30(40)31(50-25)35-18-17-26(33)34-32(35)41/h17-18,23-25,29-31,36,39-40H,3-16,19-22H2,1-2H3,(H,42,43)(H,44,45)(H2,33,34,41)/t23?,24-,25-,29+,30?,31-/m1/s1

InChI Key

WFGXESJRVZISAW-WCNNHDROSA-N

Chemical Taxonomy

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.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Glycerophospholipids

Sub Class

CDP-glycerols

Direct Parent

CDP-diacylglycerols

Alternative Parents

Substituents

Cdp-diacylglycerol
Diacyl-glycerol-3-pyrophosphate
Pentose phosphate
Pentose-5-phosphate
Glycosyl compound
N-glycosyl compound
Monosaccharide phosphate
Organic pyrophosphate
Beta-hydroxy acid
Fatty acid ester
Hydroxypyrimidine
Monoalkyl phosphate
Fatty acyl
Alkyl phosphate
Pyrimidine
Phosphoric acid ester
Dicarboxylic acid or derivatives
Hydropyrimidine
Hydroxy acid
Monosaccharide
Organic phosphoric acid derivative
Heteroaromatic compound
Oxolane
Secondary alcohol
1,2-diol
Carboxylic acid ester
Oxacycle
Organoheterocyclic compound
Carboxylic acid derivative
Azacycle
Organooxygen compound
Organic oxide
Organic oxygen compound
Alcohol
Organic nitrogen compound
Carbonyl group
Organonitrogen compound
Hydrocarbon derivative
Aromatic heteromonocyclic compound

Molecular Framework

Aromatic heteromonocyclic compounds

External Descriptors

Not Available

Functional Ontology

Not Available

Physical Properties

State

Expected Solid

Predicted Properties

Property	Value	Source
Water Solubility	0.75 g/L	ALOGPS
logP	1.89	ALOGPS
logP	2.99	ChemAxon
logS	-3	ALOGPS
pKa (Strongest Acidic)	-0.032	ChemAxon
pKa (Strongest Basic)	3.27	ChemAxon
Physiological Charge	-2	ChemAxon
Hydrogen Acceptor Count	13	ChemAxon
Hydrogen Donor Count	6	ChemAxon
Polar Surface Area	283.5 Å²	ChemAxon
Rotatable Bond Count	30	ChemAxon
Refractivity	186.51 m³·mol⁻¹	ChemAxon
Polarizability	81.13 Å³	ChemAxon
Number of Rings	2	ChemAxon
Bioavailability	No	ChemAxon
Rule of Five	No	ChemAxon
Ghose Filter	No	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	No	ChemAxon

Spectra

Spectrum Type	Description	Splash Key	Deposition Date	View
Predicted GC-MS	Predicted GC-MS Spectrum - GC-MS (TMS_1_5) - 70eV, Positive	Not Available	2022-08-08	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Positive	splash10-03di-0900001100-207425c63e1b81fa3671	2019-02-23	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Positive	splash10-03di-1900000000-77b75f302dd90c862e0c	2019-02-23	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Positive	splash10-03di-2910000000-f7a13f7218303e5bcdd7	2019-02-23	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Negative	splash10-0cdi-0900002100-106c20aba77b068400a2	2019-02-23	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Negative	splash10-0910-3901110000-00e581debacf01cbb23e	2019-02-23	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Negative	splash10-0bvi-4900000000-e8d4eb6e3ba4141c7fb8	2019-02-23	View Spectrum

Biological Properties

Cellular Locations

Not Available

Biospecimen Locations

Not Available

Tissue Locations

Not Available

Associated OMIM IDs

114500 (Colorectal cancer)
610247 (Eosinophilic esophagitis)

Human Proteins and Enzymes

Protein ID	Protein Name	Protein Type	Uniprot ID	Species

Human Pathways

Pathways

Name	SMPDB/PathBank

Metabolic Reactions

Reactions

Reaction ID	Precursor	Product	Enzyme	Reaction Type	Data Source	Reference

Health Effects and Bioactivity

Health Outcome/Bioactivity	Metabolite Response/Effect	Evidence Type	Host and Biospecimen	Data Source	Reference

Microbial Sources

Superkingdom/Kingdom	Phylum	Total species	Hosts and Body Sites	Microbial Links
Bacteria	Proteobacteria	1	Human ; Human feces; Human feces; pleural fluid plaque; bal; Human stool	Unknown

Exposure Sources

Source Type	Source Sub-type	Species	Data Source	Reference

Host Biospecimen and Location

Host and Biospecimen	Status	Mean	Std	Min	Max	Units	Age	Sex	Health Condition	Data Source	Reference

External Links

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FooDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

Not Available

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

Not Available

PDB ID

Not Available

ChEBI ID

Not Available

Food Biomarker Ontology

Not Available

References

Synthesis Reference

Not Available

General References

Wishart DS, Li C, Marcu A, Badran H, Pon A, Budinski Z, Patron J, Lipton D, Cao X, Oler E, Li K, Paccoud M, Hong C, Guo AC, Chan C, Wei W, Ramirez-Gaona M: PathBank: a comprehensive pathway database for model organisms. Nucleic Acids Res. 2020 Jan 8;48(D1):D470-D478. doi: 10.1093/nar/gkz861. [PubMed:31602464 ]

Showing metabocard for CDP-DG(10:0(3-OH)/10:0) (MMDBc0032548)

MOL for #<Metabolite:0x00007fecfca683d0>

3D MOL for #<Metabolite:0x00007fecfca683d0>

3D SDF for #<Metabolite:0x00007fecfca683d0>

3D-SDF for #<Metabolite:0x00007fecfca683d0>

PDB for #<Metabolite:0x00007fecfca683d0>

3D PDB for #<Metabolite:0x00007fecfca683d0>

SMILES for #<Metabolite:0x00007fecfca683d0>

INCHI for #<Metabolite:0x00007fecfca683d0>

Structure for #<Metabolite:0x00007fecfca683d0>

3D Structure for #<Metabolite:0x00007fecfca683d0>