MiMeDB: Showing metabocard for CDP-DG(4:0/16:1(9Z)) (MMDBc0032656)

Record Information

Version

1.0

Status

Detected and Quantified

Creation Date

2021-11-18 02:25:44 UTC

Update Date

2022-08-31 18:49:16 UTC

MiMeDB ID

MMDBc0032656

Metabolite Identification

Common Name

CDP-DG(4:0/16:1(9Z))

Description

CDP-DG(4:0/16:1(9Z)) 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(4:0/16:1(9Z)), in particular, consists of one butyryl chain to C-1 atom, and one 9Z-hexadecenoyl 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(4:0/16:1(9Z)) is also a substrate of CDP-diacylglycerol pyrophosphatase. It is involved in CDP-diacylglycerol degradation pathway.

Structure

MOL SDF PDB SMILES InChI

m1865
  Mrv1572012151520502D          

 53 54  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
   11.7041   -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
    8.4809   -6.0930    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.7668   -5.6799    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.0527   -6.0930    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.3386   -5.6799    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.6245   -6.0930    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.9103   -5.6799    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.1962   -6.0930    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
 37  6  1  0  0  0  0
 37 38  2  0  0  0  0
 37 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
 43 44  1  0  0  0  0
 44 45  1  0  0  0  0
 45 46  1  0  0  0  0
 46 47  2  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
M  END

m1865
  Mrv1572012151520502D          

 53 54  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
   11.7041   -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
    8.4809   -6.0930    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.7668   -5.6799    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.0527   -6.0930    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.3386   -5.6799    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.6245   -6.0930    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.9103   -5.6799    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.1962   -6.0930    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
 37  6  1  0  0  0  0
 37 38  2  0  0  0  0
 37 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
 43 44  1  0  0  0  0
 44 45  1  0  0  0  0
 45 46  1  0  0  0  0
 46 47  2  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
M  END
> <DATABASE_ID>
MMDBc0032656

> <DATABASE_NAME>
MIME

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

> <INCHI_IDENTIFIER>
InChI=1S/C32H55N3O15P2/c1-3-5-6-7-8-9-10-11-12-13-14-15-16-18-28(37)48-24(21-45-27(36)17-4-2)22-46-51(41,42)50-52(43,44)47-23-25-29(38)30(39)31(49-25)35-20-19-26(33)34-32(35)40/h9-10,19-20,24-25,29-31,38-39H,3-8,11-18,21-23H2,1-2H3,(H,41,42)(H,43,44)(H2,33,34,40)/b10-9-/t24-,25-,29+,30?,31-/m1/s1

> <INCHI_KEY>
WNWIYDFMIUESTE-PBOVCRQJSA-N

> <FORMULA>
C32H55N3O15P2

> <MOLECULAR_WEIGHT>
783.746

> <EXACT_MASS>
783.310842079

> <JCHEM_ACCEPTOR_COUNT>
12

> <JCHEM_ATOM_COUNT>
107

> <JCHEM_AVERAGE_POLARIZABILITY>
78.96582414097051

> <JCHEM_BIOAVAILABILITY>
0

> <JCHEM_DONOR_COUNT>
5

> <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)-3-(butanoyloxy)-2-[(9Z)-hexadec-9-enoyloxy]propoxy](hydroxy)phosphoryl}oxy)phosphinic acid

> <ALOGPS_LOGP>
2.89

> <JCHEM_LOGP>
3.860004141999999

> <ALOGPS_LOGS>
-3.39

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-2

> <JCHEM_PKA>
3.2716255536258734

> <JCHEM_PKA_STRONGEST_ACIDIC>
1.8631673662377821

> <JCHEM_PKA_STRONGEST_BASIC>
-0.03198989820671716

> <JCHEM_POLAR_SURFACE_AREA>
263.27

> <JCHEM_REFRACTIVITY>
186.11509999999998

> <JCHEM_ROTATABLE_BOND_COUNT>
29

> <JCHEM_RULE_OF_FIVE>
0

> <ALOGPS_SOLUBILITY>
3.23e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
[(2R,3R,5R)-5-(4-amino-2-oxopyrimidin-1-yl)-3,4-dihydroxyoxolan-2-yl]methoxy([(2R)-3-(butanoyloxy)-2-[(9Z)-hexadec-9-enoyloxy]propoxy(hydroxy)phosphoryl]oxy)phosphinic acid

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 15-DEC-15   NONE
TITLE     NULL                                                        
COMPND    MOLECULE: m1865                                             
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   15-DEC-15         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  C   UNK     0      21.848  -8.533   0.000  0.00  0.00           C+0
HETATM   37  C   UNK     0      28.035 -11.374   0.000  0.00  0.00           C+0
HETATM   38  O   UNK     0      28.035 -12.814   0.000  0.00  0.00           O+0
HETATM   39  C   UNK     0      26.702 -10.602   0.000  0.00  0.00           C+0
HETATM   40  C   UNK     0      25.369 -11.374   0.000  0.00  0.00           C+0
HETATM   41  C   UNK     0      24.036 -10.602   0.000  0.00  0.00           C+0
HETATM   42  C   UNK     0      22.703 -11.374   0.000  0.00  0.00           C+0
HETATM   43  C   UNK     0      21.370 -10.602   0.000  0.00  0.00           C+0
HETATM   44  C   UNK     0      20.037 -11.374   0.000  0.00  0.00           C+0
HETATM   45  C   UNK     0      18.704 -10.602   0.000  0.00  0.00           C+0
HETATM   46  C   UNK     0      17.371 -11.374   0.000  0.00  0.00           C+0
HETATM   47  C   UNK     0      15.831 -11.374   0.000  0.00  0.00           C+0
HETATM   48  C   UNK     0      14.498 -10.602   0.000  0.00  0.00           C+0
HETATM   49  C   UNK     0      13.165 -11.374   0.000  0.00  0.00           C+0
HETATM   50  C   UNK     0      11.832 -10.602   0.000  0.00  0.00           C+0
HETATM   51  C   UNK     0      10.499 -11.374   0.000  0.00  0.00           C+0
HETATM   52  C   UNK     0       9.166 -10.602   0.000  0.00  0.00           C+0
HETATM   53  C   UNK     0       7.833 -11.374   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   37                                                       
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                                                       
CONECT   36   35                                                            
CONECT   37    6   38   39                                                  
CONECT   38   37                                                            
CONECT   39   37   40                                                       
CONECT   40   39   41                                                       
CONECT   41   40   42                                                       
CONECT   42   41   43                                                       
CONECT   43   42   44                                                       
CONECT   44   43   45                                                       
CONECT   45   44   46                                                       
CONECT   46   45   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                                                            
MASTER        0    0    0    0    0    0    0    0   53    0  108    0
END

Synonyms

Not Available

Chemical Formula

C₃₂H₅₅N₃O₁₅P₂

Average Molecular Weight

783.746

Monoisotopic Molecular Weight

783.310842079

IUPAC Name

{[(2R,3R,5R)-5-(4-amino-2-oxo-1,2-dihydropyrimidin-1-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}({[(2R)-3-(butanoyloxy)-2-[(9Z)-hexadec-9-enoyloxy]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)-3-(butanoyloxy)-2-[(9Z)-hexadec-9-enoyloxy]propoxy(hydroxy)phosphoryl]oxy)phosphinic acid

CAS Registry Number

Not Available

SMILES

[H][C@@](COC(=O)CCC)(COP(O)(=O)OP(O)(=O)OC[C@H]1O[C@H](C(O)[C@H]1O)N1C=CC(N)=NC1=O)OC(=O)CCCCCCC\C=C/CCCCCC

InChI Identifier

InChI=1S/C32H55N3O15P2/c1-3-5-6-7-8-9-10-11-12-13-14-15-16-18-28(37)48-24(21-45-27(36)17-4-2)22-46-51(41,42)50-52(43,44)47-23-25-29(38)30(39)31(49-25)35-20-19-26(33)34-32(35)40/h9-10,19-20,24-25,29-31,38-39H,3-8,11-18,21-23H2,1-2H3,(H,41,42)(H,43,44)(H2,33,34,40)/b10-9-/t24-,25-,29+,30?,31-/m1/s1

InChI Key

WNWIYDFMIUESTE-PBOVCRQJSA-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
Organic pyrophosphate
Monosaccharide phosphate
Fatty acid ester
Hydroxypyrimidine
Monoalkyl phosphate
Alkyl phosphate
Organic phosphoric acid derivative
Monosaccharide
Pyrimidine
Phosphoric acid ester
Fatty acyl
Hydropyrimidine
Dicarboxylic acid or derivatives
Heteroaromatic compound
Oxolane
Secondary alcohol
1,2-diol
Carboxylic acid ester
Organoheterocyclic compound
Azacycle
Oxacycle
Carboxylic acid derivative
Alcohol
Hydrocarbon derivative
Organic oxide
Organic oxygen compound
Organic nitrogen compound
Carbonyl group
Organonitrogen compound
Organooxygen compound
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	0.32 g/L	ALOGPS
logP	2.89	ALOGPS
logP	3.86	ChemAxon
logS	-3.4	ALOGPS
pKa (Strongest Acidic)	1.86	ChemAxon
pKa (Strongest Basic)	-0.032	ChemAxon
Physiological Charge	-2	ChemAxon
Hydrogen Acceptor Count	12	ChemAxon
Hydrogen Donor Count	5	ChemAxon
Polar Surface Area	263.27 Å²	ChemAxon
Rotatable Bond Count	29	ChemAxon
Refractivity	186.12 m³·mol⁻¹	ChemAxon
Polarizability	78.97 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-0910010100-a0446ef779697d7526ae	2019-02-22	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Positive	splash10-03di-2910000000-5400816fc973dc53465a	2019-02-22	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Positive	splash10-03di-3910000000-097ea068f8b11181dba8	2019-02-22	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Negative	splash10-05n0-8930030500-8b9d4bc11deade77094d	2019-02-23	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Negative	splash10-029i-9411110000-850a97bda88f98d2dd1e	2019-02-23	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Negative	splash10-0bvi-6901000000-629182cc9d6b9a76020f	2019-02-23	View Spectrum
MS	Mass Spectrum (Electron Ionization)	Not Available	2022-08-06	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 100 MHz, H₂O, predicted)		Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, H₂O, predicted)		Spectrum
1D NMR	¹³C NMR Spectrum (1D, 1000 MHz, H₂O, predicted)		Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, H₂O, predicted)		Spectrum
1D NMR	¹³C NMR Spectrum (1D, 200 MHz, H₂O, predicted)		Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, H₂O, predicted)		Spectrum
1D NMR	¹³C NMR Spectrum (1D, 300 MHz, H₂O, predicted)		Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, H₂O, predicted)		Spectrum
1D NMR	¹³C NMR Spectrum (1D, 400 MHz, H₂O, predicted)		Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, H₂O, predicted)		Spectrum
1D NMR	¹³C NMR Spectrum (1D, 500 MHz, H₂O, predicted)		Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, H₂O, predicted)		Spectrum
1D NMR	¹³C NMR Spectrum (1D, 600 MHz, H₂O, predicted)		Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, H₂O, predicted)		Spectrum
1D NMR	¹³C NMR Spectrum (1D, 700 MHz, H₂O, predicted)		Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, H₂O, predicted)		Spectrum
1D NMR	¹³C NMR Spectrum (1D, 800 MHz, H₂O, predicted)		Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, H₂O, predicted)		Spectrum
1D NMR	¹³C NMR Spectrum (1D, 900 MHz, H₂O, predicted)		Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, H₂O, predicted)		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

Proteins

Human Pathways

Pathways

Name	SMPDB/PathBank

Metabolic Reactions

Not Available

Health Effects and Bioactivity

Health Outcome/Bioactivity	Metabolite Response/Effect	Related Health Condition	Evidence Type	Measured in Matrix	Data Source	Reference

Microbial Sources

Kingdom	Phylum	Total species	Hosts and Body Sites	Microbial Links
	Proteobacteria	1	Human	Unknown

Exposure Sources

Source Type	Source Sub-type	Species	Data Source	Reference	Details

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

Keseler IM, Collado-Vides J, Santos-Zavaleta A, Peralta-Gil M, Gama-Castro S, Muniz-Rascado L, Bonavides-Martinez C, Paley S, Krummenacker M, Altman T, Kaipa P, Spaulding A, Pacheco J, Latendresse M, Fulcher C, Sarker M, Shearer AG, Mackie A, Paulsen I, Gunsalus RP, Karp PD: EcoCyc: a comprehensive database of Escherichia coli biology. Nucleic Acids Res. 2011 Jan;39(Database issue):D583-90. doi: 10.1093/nar/gkq1143. Epub 2010 Nov 21. [PubMed:21097882 ]
Kanehisa M, Goto S, Sato Y, Furumichi M, Tanabe M: KEGG for integration and interpretation of large-scale molecular data sets. Nucleic Acids Res. 2012 Jan;40(Database issue):D109-14. doi: 10.1093/nar/gkr988. Epub 2011 Nov 10. [PubMed:22080510 ]
Authors unspecified: Reorganizing the protein space at the Universal Protein Resource (UniProt). Nucleic Acids Res. 2012 Jan;40(Database issue):D71-5. doi: 10.1093/nar/gkr981. Epub 2011 Nov 18. [PubMed:22102590 ]

Showing metabocard for CDP-DG(4:0/16:1(9Z)) (MMDBc0032656)

MOL for #<Metabolite:0x000055b76c5a0f90>

3D MOL for #<Metabolite:0x000055b76c5a0f90>

3D SDF for #<Metabolite:0x000055b76c5a0f90>

3D-SDF for #<Metabolite:0x000055b76c5a0f90>

PDB for #<Metabolite:0x000055b76c5a0f90>

3D PDB for #<Metabolite:0x000055b76c5a0f90>

SMILES for #<Metabolite:0x000055b76c5a0f90>

INCHI for #<Metabolite:0x000055b76c5a0f90>

Structure for #<Metabolite:0x000055b76c5a0f90>

3D Structure for #<Metabolite:0x000055b76c5a0f90>