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Showing metabocard for PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)) (HMDB0008457)

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enzymes (77)transporters (1) Show 78 proteins
Record Information
Version5.0
StatusDetected and Quantified
Creation Date2008-09-12 01:37:21 UTC
Update Date2022-03-07 02:50:10 UTC
HMDB IDHMDB0008457
Secondary Accession Numbers
  • HMDB08457
Metabolite Identification
Common NamePC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z))
DescriptionPC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)) is a phosphatidylcholine (PC or GPCho). It is a glycerophospholipid in which a phosphorylcholine moiety occupies a glycerol substitution site. As is the case with diacylglycerols, glycerophosphocholines 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. PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)), in particular, consists of one chain of arachidonic acid at the C-1 position and one chain of plasmalogen 18:1n7 at the C-2 position. The arachidonic acid moiety is derived from animal fats and eggs, while the plasmalogen 18:1n7 moiety is derived from animal fats, liver and kidney. Phospholipids, are ubiquitous in nature and are key components of the lipid bilayer of cells, as well as being involved in metabolism and signaling. While most phospholipids have a saturated fatty acid on C-1 and an unsaturated fatty acid on C-2 of the glycerol backbone, the fatty acid distribution at the C-1 and C-2 positions of glycerol within phospholipids is continually in flux, owing to phospholipid degradation and the continuous phospholipid remodeling that occurs while these molecules are in membranes. PCs can be synthesized via three different routes. In one route, choline is activated first by phosphorylation and then by coupling to CDP prior to attachment to phosphatidic acid. PCs can also synthesized by the addition of choline to CDP-activated 1,2-diacylglycerol. A third route to PC synthesis involves the conversion of either PS or PE to PC. Plasmalogens are glycerol ether phospholipids. They are of two types, alkyl ether (-O-CH2-) and alkenyl ether (-O-CH=CH-). Dihydroxyacetone phosphate (DHAP) serves as the glycerol precursor for the synthesis of plasmalogens. Three major classes of plasmalogens have been identified: choline, ethanolamine and serine derivatives. Ethanolamine plasmalogen is prevalent in myelin. Choline plasmalogen is abundant in cardiac tissue. Usually, the highest proportion of the plasmalogen form is in the ethanolamine class with rather less in choline, and commonly little or none in other phospholipids such as phosphatidylinositol. In choline plasmalogens of most tissues, a higher proportion is often of the O-alkyl rather than the O-alkenyl form, but the reverse tends to be true in heart lipids. In animal tissues, the alkyl and alkenyl moieties in both non-polar and phospholipids tend to be rather simple in composition with 16:0, 18:0 and 18:1 (double bond in position 9) predominating. Ether analogues of triacylglycerols, i.e. 1-alkyldiacyl-sn-glycerols, are present at trace levels only if at all in most animal tissues, but they can be major components of some marine lipids.
Structure
Data?1582752585
MOL3D MOLSDF3D SDFPDB3D PDBSMILESInChI

MOL for HMDB0008457 (PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)))


  Mrv0541 02231222272D          

 55 54  0  0  0  0            999 V2000
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M  CHG  2   8  -1  13   1
M  END
Download

3D MOL for HMDB0008457 (PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)))

HMDB0008457
     RDKit          3D
PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z))
137136  0  0  0  0  0  0  0  0999 V2000
    3.9683   -0.8364   -7.5438 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4762   -1.0176   -8.9663 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0542   -1.5160   -8.9755 C   0  0  0  0  0  0  0  0  0  0  0  0
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 55135  1  0
 55136  1  0
 55137  1  0
M  CHG  2  29  -1  33   1
M  END
Download

3D SDF for HMDB0008457 (PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)))


  Mrv0541 02231222272D          

 55 54  0  0  0  0            999 V2000
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   26.1693   -7.5164    0.0000 O   0  5  0  0  0  0  0  0  0  0  0  0
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 36  5  1  0  0  0  0
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 53 52  1  0  0  0  0
  6 38  1  0  0  0  0
 54 53  1  0  0  0  0
 55 54  1  0  0  0  0
M  CHG  2   8  -1  13   1
M  END
> <DATABASE_ID>
HMDB0008457

> <DATABASE_NAME>
hmdb

> <SMILES>
CCCCCC\C=C/CCCCCCCC\C=C/OC(COC(=O)CCC\C=C/C\C=C/C\C=C/C\C=C/CCCCC)COP([O-])(=O)OCC[N+](C)(C)C

> <INCHI_IDENTIFIER>
InChI=1S/C46H82NO7P/c1-6-8-10-12-14-16-18-20-22-24-25-27-29-31-33-35-37-39-46(48)52-43-45(44-54-55(49,50)53-42-40-47(3,4)5)51-41-38-36-34-32-30-28-26-23-21-19-17-15-13-11-9-7-2/h14,16-17,19-20,22,25,27,31,33,38,41,45H,6-13,15,18,21,23-24,26,28-30,32,34-37,39-40,42-44H2,1-5H3/b16-14-,19-17-,22-20-,27-25-,33-31-,41-38-

> <INCHI_KEY>
BKCKPUXEOILIKW-YNZCAZTGSA-N

> <FORMULA>
C46H82NO7P

> <MOLECULAR_WEIGHT>
792.1195

> <EXACT_MASS>
791.582890495

> <JCHEM_ACCEPTOR_COUNT>
4

> <JCHEM_AVERAGE_POLARIZABILITY>
95.91174882826301

> <JCHEM_BIOAVAILABILITY>
0

> <JCHEM_DONOR_COUNT>
0

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
[2-({3-[(5Z,8Z,11Z,14Z)-icosa-5,8,11,14-tetraenoyloxy]-2-[(1Z,11Z)-octadeca-1,11-dien-1-yloxy]propyl phosphonato}oxy)ethyl]trimethylazanium

> <ALOGPS_LOGP>
6.32

> <JCHEM_LOGP>
9.364374726861588

> <ALOGPS_LOGS>
-7.36

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
0

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_ACIDIC>
1.8550787802403805

> <JCHEM_PKA_STRONGEST_BASIC>
-4.757862757927942

> <JCHEM_POLAR_SURFACE_AREA>
94.12

> <JCHEM_REFRACTIVITY>
249.39260000000004

> <JCHEM_ROTATABLE_BOND_COUNT>
40

> <JCHEM_RULE_OF_FIVE>
0

> <ALOGPS_SOLUBILITY>
3.68e-05 g/l

> <JCHEM_TRADITIONAL_IUPAC>
lecithin

> <JCHEM_VEBER_RULE>
0

$$$$
Download

3D-SDF for HMDB0008457 (PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)))

HMDB0008457
     RDKit          3D
PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z))
137136  0  0  0  0  0  0  0  0999 V2000
    3.9683   -0.8364   -7.5438 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4762   -1.0176   -8.9663 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0542   -1.5160   -8.9755 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9959   -2.8515   -8.2670 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.5207   -3.2975   -8.2908 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4397   -4.5924   -7.6429 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2507   -4.8760   -6.5940 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0833   -3.8820   -5.8815 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5112   -4.2995   -5.8649 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4348   -3.5409   -6.3681 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2659   -2.2086   -7.0072 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0826   -1.2621   -6.2107 C   0  0  0  0  0  0  0  0  0  0  0  0
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   -2.2266    0.1688   -5.5738 C   0  0  0  0  0  0  0  0  0  0  0  0
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M  CHG  2  29  -1  33   1
M  END
Download

PDB for HMDB0008457 (PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)))

HEADER    PROTEIN                                 23-FEB-12   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   23-FEB-12         0                                  
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HETATM   39  C   UNK     0      41.463 -15.756   0.000  0.00  0.00           C+0
HETATM   40  C   UNK     0      40.125 -14.994   0.000  0.00  0.00           C+0
HETATM   41  C   UNK     0      38.786 -15.756   0.000  0.00  0.00           C+0
HETATM   42  C   UNK     0      37.448 -14.994   0.000  0.00  0.00           C+0
HETATM   43  C   UNK     0      36.109 -15.756   0.000  0.00  0.00           C+0
HETATM   44  C   UNK     0      34.771 -14.994   0.000  0.00  0.00           C+0
HETATM   45  C   UNK     0      33.454 -15.756   0.000  0.00  0.00           C+0
HETATM   46  C   UNK     0      32.115 -14.994   0.000  0.00  0.00           C+0
HETATM   47  C   UNK     0      30.777 -15.756   0.000  0.00  0.00           C+0
HETATM   48  C   UNK     0      29.438 -14.994   0.000  0.00  0.00           C+0
HETATM   49  C   UNK     0      28.100 -14.994   0.000  0.00  0.00           C+0
HETATM   50  C   UNK     0      26.761 -15.756   0.000  0.00  0.00           C+0
HETATM   51  C   UNK     0      25.423 -14.994   0.000  0.00  0.00           C+0
HETATM   52  C   UNK     0      24.084 -15.756   0.000  0.00  0.00           C+0
HETATM   53  C   UNK     0      22.745 -14.994   0.000  0.00  0.00           C+0
HETATM   54  C   UNK     0      21.407 -15.756   0.000  0.00  0.00           C+0
HETATM   55  C   UNK     0      20.067 -14.994   0.000  0.00  0.00           C+0
CONECT    1    2    4                                                       
CONECT    2    1    3    6                                                  
CONECT    3    2    5                                                       
CONECT    4    1    7                                                       
CONECT    5    3   36                                                       
CONECT    6    2   38                                                       
CONECT    7    4    8    9   10                                             
CONECT    8    7                                                            
CONECT    9    7                                                            
CONECT   10    7   11                                                       
CONECT   11   10   12                                                       
CONECT   12   11   13                                                       
CONECT   13   12   14   15   16                                             
CONECT   14   13                                                            
CONECT   15   13                                                            
CONECT   16   13                                                            
CONECT   17   18                                                            
CONECT   18   17   19                                                       
CONECT   19   18   20                                                       
CONECT   20   19   21                                                       
CONECT   21   20   22                                                       
CONECT   22   21   23                                                       
CONECT   23   22   24                                                       
CONECT   24   23   25                                                       
CONECT   25   24   26                                                       
CONECT   26   25   27                                                       
CONECT   27   26   28                                                       
CONECT   28   27   29                                                       
CONECT   29   28   30                                                       
CONECT   30   29   31                                                       
CONECT   31   30   32                                                       
CONECT   32   31   33                                                       
CONECT   33   32   34                                                       
CONECT   34   33   35                                                       
CONECT   35   34   36                                                       
CONECT   36   35    5   37                                                  
CONECT   37   36                                                            
CONECT   38   39    6                                                       
CONECT   39   38   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   54                                                       
CONECT   54   53   55                                                       
CONECT   55   54                                                            
MASTER        0    0    0    0    0    0    0    0   55    0  108    0
END
Download

3D PDB for HMDB0008457 (PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)))

COMPND    HMDB0008457
HETATM    1  C1  UNL     1       3.968  -0.836  -7.544  1.00  0.00           C  
HETATM    2  C2  UNL     1       3.476  -1.018  -8.966  1.00  0.00           C  
HETATM    3  C3  UNL     1       2.054  -1.516  -8.975  1.00  0.00           C  
HETATM    4  C4  UNL     1       1.996  -2.851  -8.267  1.00  0.00           C  
HETATM    5  C5  UNL     1       0.521  -3.298  -8.291  1.00  0.00           C  
HETATM    6  C6  UNL     1       0.440  -4.592  -7.643  1.00  0.00           C  
HETATM    7  C7  UNL     1      -0.251  -4.876  -6.594  1.00  0.00           C  
HETATM    8  C8  UNL     1      -1.083  -3.882  -5.882  1.00  0.00           C  
HETATM    9  C9  UNL     1      -2.511  -4.300  -5.865  1.00  0.00           C  
HETATM   10  C10 UNL     1      -3.435  -3.541  -6.368  1.00  0.00           C  
HETATM   11  C11 UNL     1      -3.266  -2.209  -7.007  1.00  0.00           C  
HETATM   12  C12 UNL     1      -4.083  -1.262  -6.211  1.00  0.00           C  
HETATM   13  C13 UNL     1      -3.648  -0.238  -5.590  1.00  0.00           C  
HETATM   14  C14 UNL     1      -2.227   0.169  -5.574  1.00  0.00           C  
HETATM   15  C15 UNL     1      -2.234   1.578  -6.126  1.00  0.00           C  
HETATM   16  C16 UNL     1      -1.820   2.627  -5.465  1.00  0.00           C  
HETATM   17  C17 UNL     1      -1.299   2.518  -4.104  1.00  0.00           C  
HETATM   18  C18 UNL     1      -2.159   3.274  -3.078  1.00  0.00           C  
HETATM   19  C19 UNL     1      -1.577   3.078  -1.698  1.00  0.00           C  
HETATM   20  C20 UNL     1      -2.420   3.735  -0.638  1.00  0.00           C  
HETATM   21  O1  UNL     1      -3.387   4.480  -0.914  1.00  0.00           O  
HETATM   22  O2  UNL     1      -2.143   3.519   0.694  1.00  0.00           O  
HETATM   23  C21 UNL     1      -2.841   4.030   1.797  1.00  0.00           C  
HETATM   24  C22 UNL     1      -2.207   3.434   3.066  1.00  0.00           C  
HETATM   25  C23 UNL     1      -0.757   3.903   3.199  1.00  0.00           C  
HETATM   26  O3  UNL     1      -0.160   3.291   4.293  1.00  0.00           O  
HETATM   27  P1  UNL     1       1.430   3.813   4.449  1.00  0.00           P  
HETATM   28  O4  UNL     1       2.031   4.106   3.099  1.00  0.00           O  
HETATM   29  O5  UNL     1       1.522   5.237   5.389  1.00  0.00           O1-
HETATM   30  O6  UNL     1       2.372   2.593   5.190  1.00  0.00           O  
HETATM   31  C24 UNL     1       1.586   1.951   6.176  1.00  0.00           C  
HETATM   32  C25 UNL     1       2.435   0.869   6.782  1.00  0.00           C  
HETATM   33  N1  UNL     1       1.787   0.110   7.805  1.00  0.00           N1+
HETATM   34  C26 UNL     1       0.926   0.843   8.679  1.00  0.00           C  
HETATM   35  C27 UNL     1       0.954  -0.904   7.143  1.00  0.00           C  
HETATM   36  C28 UNL     1       2.740  -0.647   8.613  1.00  0.00           C  
HETATM   37  O7  UNL     1      -2.915   3.753   4.232  1.00  0.00           O  
HETATM   38  C29 UNL     1      -4.230   3.335   4.304  1.00  0.00           C  
HETATM   39  C30 UNL     1      -4.574   2.361   5.099  1.00  0.00           C  
HETATM   40  C31 UNL     1      -3.730   1.577   5.995  1.00  0.00           C  
HETATM   41  C32 UNL     1      -3.916   0.088   5.717  1.00  0.00           C  
HETATM   42  C33 UNL     1      -3.486  -0.322   4.344  1.00  0.00           C  
HETATM   43  C34 UNL     1      -1.990  -0.123   4.150  1.00  0.00           C  
HETATM   44  C35 UNL     1      -1.568  -0.432   2.764  1.00  0.00           C  
HETATM   45  C36 UNL     1      -0.137  -0.282   2.461  1.00  0.00           C  
HETATM   46  C37 UNL     1       0.806  -1.169   3.173  1.00  0.00           C  
HETATM   47  C38 UNL     1       2.218  -0.755   2.705  1.00  0.00           C  
HETATM   48  C39 UNL     1       3.242  -1.637   3.289  1.00  0.00           C  
HETATM   49  C40 UNL     1       4.041  -2.352   2.523  1.00  0.00           C  
HETATM   50  C41 UNL     1       3.964  -2.314   1.069  1.00  0.00           C  
HETATM   51  C42 UNL     1       5.255  -1.842   0.420  1.00  0.00           C  
HETATM   52  C43 UNL     1       5.137  -1.768  -1.068  1.00  0.00           C  
HETATM   53  C44 UNL     1       4.800  -3.050  -1.750  1.00  0.00           C  
HETATM   54  C45 UNL     1       4.708  -2.819  -3.258  1.00  0.00           C  
HETATM   55  C46 UNL     1       5.991  -2.311  -3.843  1.00  0.00           C  
HETATM   56  H1  UNL     1       4.902  -0.243  -7.501  1.00  0.00           H  
HETATM   57  H2  UNL     1       4.174  -1.803  -7.038  1.00  0.00           H  
HETATM   58  H3  UNL     1       3.180  -0.281  -6.982  1.00  0.00           H  
HETATM   59  H4  UNL     1       4.171  -1.767  -9.436  1.00  0.00           H  
HETATM   60  H5  UNL     1       3.545  -0.069  -9.516  1.00  0.00           H  
HETATM   61  H6  UNL     1       1.682  -1.689 -10.008  1.00  0.00           H  
HETATM   62  H7  UNL     1       1.437  -0.800  -8.438  1.00  0.00           H  
HETATM   63  H8  UNL     1       2.343  -2.736  -7.235  1.00  0.00           H  
HETATM   64  H9  UNL     1       2.590  -3.633  -8.795  1.00  0.00           H  
HETATM   65  H10 UNL     1       0.316  -3.451  -9.379  1.00  0.00           H  
HETATM   66  H11 UNL     1      -0.025  -2.465  -7.864  1.00  0.00           H  
HETATM   67  H12 UNL     1       1.046  -5.407  -8.112  1.00  0.00           H  
HETATM   68  H13 UNL     1      -0.241  -5.884  -6.190  1.00  0.00           H  
HETATM   69  H14 UNL     1      -0.926  -2.844  -6.146  1.00  0.00           H  
HETATM   70  H15 UNL     1      -0.718  -3.946  -4.804  1.00  0.00           H  
HETATM   71  H16 UNL     1      -2.796  -5.253  -5.426  1.00  0.00           H  
HETATM   72  H17 UNL     1      -4.484  -3.898  -6.328  1.00  0.00           H  
HETATM   73  H18 UNL     1      -3.830  -2.314  -7.994  1.00  0.00           H  
HETATM   74  H19 UNL     1      -2.280  -1.916  -7.282  1.00  0.00           H  
HETATM   75  H20 UNL     1      -5.168  -1.523  -6.189  1.00  0.00           H  
HETATM   76  H21 UNL     1      -4.332   0.404  -5.026  1.00  0.00           H  
HETATM   77  H22 UNL     1      -1.896   0.103  -4.537  1.00  0.00           H  
HETATM   78  H23 UNL     1      -1.575  -0.378  -6.283  1.00  0.00           H  
HETATM   79  H24 UNL     1      -2.611   1.680  -7.138  1.00  0.00           H  
HETATM   80  H25 UNL     1      -1.859   3.613  -5.932  1.00  0.00           H  
HETATM   81  H26 UNL     1      -0.991   1.540  -3.785  1.00  0.00           H  
HETATM   82  H27 UNL     1      -0.323   3.139  -4.077  1.00  0.00           H  
HETATM   83  H28 UNL     1      -3.151   2.816  -3.090  1.00  0.00           H  
HETATM   84  H29 UNL     1      -2.129   4.338  -3.388  1.00  0.00           H  
HETATM   85  H30 UNL     1      -1.437   2.024  -1.437  1.00  0.00           H  
HETATM   86  H31 UNL     1      -0.574   3.579  -1.608  1.00  0.00           H  
HETATM   87  H32 UNL     1      -3.908   3.819   1.820  1.00  0.00           H  
HETATM   88  H33 UNL     1      -2.691   5.139   1.892  1.00  0.00           H  
HETATM   89  H34 UNL     1      -2.176   2.356   2.862  1.00  0.00           H  
HETATM   90  H35 UNL     1      -0.164   3.676   2.298  1.00  0.00           H  
HETATM   91  H36 UNL     1      -0.744   4.996   3.355  1.00  0.00           H  
HETATM   92  H37 UNL     1       1.384   2.741   6.935  1.00  0.00           H  
HETATM   93  H38 UNL     1       0.656   1.610   5.730  1.00  0.00           H  
HETATM   94  H39 UNL     1       3.375   1.315   7.166  1.00  0.00           H  
HETATM   95  H40 UNL     1       2.758   0.149   5.978  1.00  0.00           H  
HETATM   96  H41 UNL     1       1.514   1.510   9.325  1.00  0.00           H  
HETATM   97  H42 UNL     1       0.441   0.097   9.368  1.00  0.00           H  
HETATM   98  H43 UNL     1       0.087   1.345   8.161  1.00  0.00           H  
HETATM   99  H44 UNL     1       1.545  -1.546   6.480  1.00  0.00           H  
HETATM  100  H45 UNL     1       0.206  -0.352   6.539  1.00  0.00           H  
HETATM  101  H46 UNL     1       0.379  -1.492   7.920  1.00  0.00           H  
HETATM  102  H47 UNL     1       2.211  -0.976   9.517  1.00  0.00           H  
HETATM  103  H48 UNL     1       3.603  -0.020   8.935  1.00  0.00           H  
HETATM  104  H49 UNL     1       3.091  -1.567   8.080  1.00  0.00           H  
HETATM  105  H50 UNL     1      -5.004   3.833   3.677  1.00  0.00           H  
HETATM  106  H51 UNL     1      -5.646   2.092   5.097  1.00  0.00           H  
HETATM  107  H52 UNL     1      -2.673   1.869   6.041  1.00  0.00           H  
HETATM  108  H53 UNL     1      -4.114   1.704   7.048  1.00  0.00           H  
HETATM  109  H54 UNL     1      -4.932  -0.204   5.974  1.00  0.00           H  
HETATM  110  H55 UNL     1      -3.219  -0.428   6.441  1.00  0.00           H  
HETATM  111  H56 UNL     1      -3.795  -1.363   4.180  1.00  0.00           H  
HETATM  112  H57 UNL     1      -4.002   0.287   3.543  1.00  0.00           H  
HETATM  113  H58 UNL     1      -1.727   0.839   4.566  1.00  0.00           H  
HETATM  114  H59 UNL     1      -1.531  -0.879   4.869  1.00  0.00           H  
HETATM  115  H60 UNL     1      -2.205   0.121   2.048  1.00  0.00           H  
HETATM  116  H61 UNL     1      -1.844  -1.517   2.577  1.00  0.00           H  
HETATM  117  H62 UNL     1       0.054  -0.357   1.364  1.00  0.00           H  
HETATM  118  H63 UNL     1       0.162   0.784   2.695  1.00  0.00           H  
HETATM  119  H64 UNL     1       0.750  -0.946   4.258  1.00  0.00           H  
HETATM  120  H65 UNL     1       0.718  -2.230   2.965  1.00  0.00           H  
HETATM  121  H66 UNL     1       2.419   0.264   3.206  1.00  0.00           H  
HETATM  122  H67 UNL     1       2.264  -0.531   1.655  1.00  0.00           H  
HETATM  123  H68 UNL     1       3.290  -1.658   4.380  1.00  0.00           H  
HETATM  124  H69 UNL     1       4.790  -2.995   3.022  1.00  0.00           H  
HETATM  125  H70 UNL     1       3.899  -3.414   0.743  1.00  0.00           H  
HETATM  126  H71 UNL     1       3.099  -1.862   0.603  1.00  0.00           H  
HETATM  127  H72 UNL     1       5.555  -0.861   0.809  1.00  0.00           H  
HETATM  128  H73 UNL     1       6.090  -2.573   0.642  1.00  0.00           H  
HETATM  129  H74 UNL     1       6.157  -1.469  -1.456  1.00  0.00           H  
HETATM  130  H75 UNL     1       4.425  -0.977  -1.405  1.00  0.00           H  
HETATM  131  H76 UNL     1       3.857  -3.523  -1.446  1.00  0.00           H  
HETATM  132  H77 UNL     1       5.616  -3.820  -1.626  1.00  0.00           H  
HETATM  133  H78 UNL     1       3.939  -2.015  -3.454  1.00  0.00           H  
HETATM  134  H79 UNL     1       4.329  -3.714  -3.762  1.00  0.00           H  
HETATM  135  H80 UNL     1       6.121  -1.246  -3.613  1.00  0.00           H  
HETATM  136  H81 UNL     1       5.852  -2.357  -4.960  1.00  0.00           H  
HETATM  137  H82 UNL     1       6.868  -2.944  -3.643  1.00  0.00           H  
CONECT    1    2   56   57   58
CONECT    2    3   59   60
CONECT    3    4   61   62
CONECT    4    5   63   64
CONECT    5    6   65   66
CONECT    6    7    7   67
CONECT    7    8   68
CONECT    8    9   69   70
CONECT    9   10   10   71
CONECT   10   11   72
CONECT   11   12   73   74
CONECT   12   13   13   75
CONECT   13   14   76
CONECT   14   15   77   78
CONECT   15   16   16   79
CONECT   16   17   80
CONECT   17   18   81   82
CONECT   18   19   83   84
CONECT   19   20   85   86
CONECT   20   21   21   22
CONECT   22   23
CONECT   23   24   87   88
CONECT   24   25   37   89
CONECT   25   26   90   91
CONECT   26   27
CONECT   27   28   28   29   30
CONECT   30   31
CONECT   31   32   92   93
CONECT   32   33   94   95
CONECT   33   34   35   36
CONECT   34   96   97   98
CONECT   35   99  100  101
CONECT   36  102  103  104
CONECT   37   38
CONECT   38   39   39  105
CONECT   39   40  106
CONECT   40   41  107  108
CONECT   41   42  109  110
CONECT   42   43  111  112
CONECT   43   44  113  114
CONECT   44   45  115  116
CONECT   45   46  117  118
CONECT   46   47  119  120
CONECT   47   48  121  122
CONECT   48   49   49  123
CONECT   49   50  124
CONECT   50   51  125  126
CONECT   51   52  127  128
CONECT   52   53  129  130
CONECT   53   54  131  132
CONECT   54   55  133  134
CONECT   55  135  136  137
END
Download

SMILES for HMDB0008457 (PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)))

CCCCCC\C=C/CCCCCCCC\C=C/OC(COC(=O)CCC\C=C/C\C=C/C\C=C/C\C=C/CCCCC)COP([O-])(=O)OCC[N+](C)(C)C
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INCHI for HMDB0008457 (PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)))

InChI=1S/C46H82NO7P/c1-6-8-10-12-14-16-18-20-22-24-25-27-29-31-33-35-37-39-46(48)52-43-45(44-54-55(49,50)53-42-40-47(3,4)5)51-41-38-36-34-32-30-28-26-23-21-19-17-15-13-11-9-7-2/h14,16-17,19-20,22,25,27,31,33,38,41,45H,6-13,15,18,21,23-24,26,28-30,32,34-37,39-40,42-44H2,1-5H3/b16-14-,19-17-,22-20-,27-25-,33-31-,41-38-
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View in JSmolView Stereo Labels
Synonyms
ValueSource
GlycerophosphocholineMetBuilder, HMDB
1-(5Z,8Z,11Z,14Z-Eicosatetraenoyl)-2-(1Z,11Z-octadecadienyl)-sn-glycero-3-phosphocholineMetBuilder, HMDB
Glycerophosphocholine(20:4(5Z,8Z,11Z,14Z)/p-18:1(11Z))MetBuilder, HMDB
PC(20:5)MetBuilder, HMDB
gpcho(20:5)MetBuilder, HMDB
Phosphatidylcholine(20:5)MetBuilder, HMDB
PC(20:4/P-18:1)MetBuilder, HMDB
gpcho(20:4/P-18:1)MetBuilder, HMDB
Phosphatidylcholine(20:4/p-18:1)MetBuilder, HMDB
Chemical FormulaC46H82NO7P
Average Molecular Weight792.1195
Monoisotopic Molecular Weight791.582890495
IUPAC Name[2-({3-[(5Z,8Z,11Z,14Z)-icosa-5,8,11,14-tetraenoyloxy]-2-[(1Z,11Z)-octadeca-1,11-dien-1-yloxy]propyl phosphonato}oxy)ethyl]trimethylazanium
Traditional Namelecithin
CAS Registry NumberNot Available
SMILES
CCCCCC\C=C/CCCCCCCC\C=C/OC(COC(=O)CCC\C=C/C\C=C/C\C=C/C\C=C/CCCCC)COP([O-])(=O)OCC[N+](C)(C)C
InChI Identifier
InChI=1S/C46H82NO7P/c1-6-8-10-12-14-16-18-20-22-24-25-27-29-31-33-35-37-39-46(48)52-43-45(44-54-55(49,50)53-42-40-47(3,4)5)51-41-38-36-34-32-30-28-26-23-21-19-17-15-13-11-9-7-2/h14,16-17,19-20,22,25,27,31,33,38,41,45H,6-13,15,18,21,23-24,26,28-30,32,34-37,39-40,42-44H2,1-5H3/b16-14-,19-17-,22-20-,27-25-,33-31-,41-38-
InChI KeyBKCKPUXEOILIKW-YNZCAZTGSA-N
Chemical Taxonomy
Description Belongs to the class of organic compounds known as 1-acyl,2-(1z-alkenyl)-glycerophosphocholines. These are glycerophosphocholines that carry exactly one acyl chain attached to the glycerol moiety through an ester linkage at the O1-position, and one 1Z-alkenyl chain attached through an ether linkage at the O2-position.
KingdomOrganic compounds
Super ClassLipids and lipid-like molecules
ClassGlycerophospholipids
Sub ClassGlycerophosphocholines
Direct Parent1-acyl,2-(1Z-alkenyl)-glycerophosphocholines
Alternative Parents
Substituents
  • 1-acyl,2-(1z-alkenyl)-glycerophosphocholine
  • Phosphocholine
  • Glycerol vinyl ether
  • Fatty acid ester
  • Dialkyl phosphate
  • Organic phosphoric acid derivative
  • Phosphoric acid ester
  • Alkyl phosphate
  • Fatty acyl
  • Quaternary ammonium salt
  • Tetraalkylammonium salt
  • Carboxylic acid ester
  • Monocarboxylic acid or derivatives
  • Carboxylic acid derivative
  • Amine
  • Organic oxide
  • Organopnictogen compound
  • Organooxygen compound
  • Organonitrogen compound
  • Organic oxygen compound
  • Organic nitrogen compound
  • Carbonyl group
  • Hydrocarbon derivative
  • Organic salt
  • Aliphatic acyclic compound
Molecular FrameworkAliphatic acyclic compounds
External DescriptorsNot Available
Ontology
Physiological effect
Health effect
Disposition
Biological locationSource
Process
Naturally occurring process
Role
Biological roleIndustrial application
Physical Properties
StateSolid
Experimental Molecular Properties
PropertyValueReference
Melting PointNot AvailableNot Available
Boiling PointNot AvailableNot Available
Water SolubilityNot AvailableNot Available
LogPNot AvailableNot Available
Experimental Chromatographic PropertiesNot Available
Predicted Molecular Properties
PropertyValueSource
Water Solubility3.7e-05 g/LALOGPS
logP6.32ALOGPS
logP9.36ChemAxon
logS-7.4ALOGPS
pKa (Strongest Acidic)1.86ChemAxon
pKa (Strongest Basic)-4.8ChemAxon
Physiological Charge0ChemAxon
Hydrogen Acceptor Count4ChemAxon
Hydrogen Donor Count0ChemAxon
Polar Surface Area94.12 ŲChemAxon
Rotatable Bond Count40ChemAxon
Refractivity249.39 m³·mol⁻¹ChemAxon
Polarizability95.91 ųChemAxon
Number of Rings0ChemAxon
BioavailabilityNoChemAxon
Rule of FiveNoChemAxon
Ghose FilterNoChemAxon
Veber's RuleNoChemAxon
MDDR-like RuleNoChemAxon
Predicted Chromatographic Properties

Predicted Collision Cross Sections

PredictorAdduct TypeCCS Value (Å2)Reference
DeepCCS[M+H]+285.80530932474
DeepCCS[M-H]-283.47930932474
DeepCCS[M-2H]-316.40330932474
DeepCCS[M+Na]+291.54530932474
AllCCS[M+H]+291.832859911
AllCCS[M+H-H2O]+291.632859911
AllCCS[M+NH4]+291.932859911
AllCCS[M+Na]+291.932859911
AllCCS[M-H]-277.032859911
AllCCS[M+Na-2H]-282.432859911
AllCCS[M+HCOO]-288.332859911

Predicted Kovats Retention Indices

Underivatized

MetaboliteSMILESKovats RI ValueColumn TypeReference
PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z))CCCCCC\C=C/CCCCCCCC\C=C/OC(COC(=O)CCC\C=C/C\C=C/C\C=C/C\C=C/CCCCC)COP([O-])(=O)OCC[N+](C)(C)C5731.2Standard polar33892256
PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z))CCCCCC\C=C/CCCCCCCC\C=C/OC(COC(=O)CCC\C=C/C\C=C/C\C=C/C\C=C/CCCCC)COP([O-])(=O)OCC[N+](C)(C)C4609.4Standard non polar33892256
PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z))CCCCCC\C=C/CCCCCCCC\C=C/OC(COC(=O)CCC\C=C/C\C=C/C\C=C/C\C=C/CCCCC)COP([O-])(=O)OCC[N+](C)(C)C5258.0Semi standard non polar33892256
Spectra

MS/MS Spectra

Spectrum TypeDescriptionSplash KeyDeposition DateSourceView
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)) 10V, Positive-QTOFsplash10-000i-9051212500-a515022f9c4af1b7a2e62017-09-01Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)) 20V, Positive-QTOFsplash10-000i-5293114100-4dcb49ef9f0c53f1bf392017-09-01Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)) 40V, Positive-QTOFsplash10-052s-8094032100-272847e770fc3b07d7342017-09-01Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)) 10V, Negative-QTOFsplash10-0f7c-0097000600-31297887571c6a125afb2017-09-01Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)) 20V, Negative-QTOFsplash10-0udr-0079001200-3cc532efe0f95a7c24412017-09-01Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)) 40V, Negative-QTOFsplash10-0f9i-4094200000-53bd68b2bcc0986683b32017-09-01Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)) 10V, Positive-QTOFsplash10-0006-2100002900-8224068da3cb88681ddd2021-09-23Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)) 20V, Positive-QTOFsplash10-001i-2900002100-d969b626c17fea7f9c552021-09-23Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)) 40V, Positive-QTOFsplash10-001i-0910000000-0445091a55793cc7f3522021-09-23Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)) 10V, Negative-QTOFsplash10-0006-0000000900-2ade56e2a80dd485d72e2021-09-24Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)) 20V, Negative-QTOFsplash10-0006-0031000900-37a3bb031308f44da2672021-09-24Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PC(20:4(5Z,8Z,11Z,14Z)/P-18:1(11Z)) 40V, Negative-QTOFsplash10-0zi0-9255100000-72d0d9aea10fb97ea63d2021-09-24Wishart LabView Spectrum
Biological Properties
Cellular Locations
  • Extracellular
  • Membrane
Biospecimen Locations
  • Blood
  • Feces
  • Saliva
  • Urine
Tissue Locations
  • All Tissues
Pathways
Normal Concentrations
BiospecimenStatusValueAgeSexConditionReferenceDetails
BloodDetected and Quantified21.8 (18.8-25.2) uMNewborn (0-30 days old)Not Available
Normal		 details
BloodDetected and Quantified36.2 (28.8-42.9) uMInfant (0-1 year old)Not Available
Normal		 details
BloodDetected and Quantified54.2 +/- 13.2 uMAdult (>18 years old)BothNormal details
BloodDetected and Quantified81.9(19.68) uMAdult (>18 years old)BothNormal details
FecesDetected and Quantified0.05 +/- 0.02 nmol/g wet fecesAdult (>18 years old)Both
Normal		 details
FecesDetected and Quantified0.09 +/- 0.09 nmol/g wet fecesAdult (>18 years old)Both
Normal		 details
SalivaDetected and Quantified0.022 +/- 0.005 uMAdult (>18 years old)Both
Normal
    • Zerihun T. Dame, ...
 details
UrineDetected and Quantified0.0007 (0.0002-0.002) umol/mmol creatinineAdult (>18 years old)Both
Normal		 details
Abnormal Concentrations
BiospecimenStatusValueAgeSexConditionReferenceDetails
BloodDetected and Quantified39.8 +/- 13.1 uMChildren (1-13 years old)Both
Obesity
    • Metabolomics reve...
 details
BloodDetected and Quantified48.5 +/- 15.2 uMChildren (1-13 years old)Both
Obesity
    • Metabolomics reve...
 details
BloodDetected and Quantified40.448 (34.594) uMAdult (>18 years old)FemalePregnancy with fetus having congenital heart defect details
BloodDetected and Quantified68.83(20.51) uMAdult (>18 years old)BothHeart failure with preserved ejection fraction details
BloodDetected and Quantified76.975 (21.930) uMAdult (>18 years old)FemalePregnancy details
BloodDetected and Quantified72.19(13.9) uMAdult (>18 years old)BothHeart failure with reduced ejection fraction details
FecesDetected but not QuantifiedNot QuantifiedNewborn (0-30 days old)Not Specified
Premature neonates		 details
Predicted Concentrations
BiospecimenValueOriginal ageOriginal sexOriginal conditionComments
Blood1.636 +/- 0.685 uMAdult (>18 years old)BothNormal (Upper Limit)Concentration data updated from parsing Nick's...
Blood0.068 +/- 0.026 uMAdult (>18 years old)BothNormal (Most Probable)Concentration data updated from parsing Nick's...
Associated Disorders and Diseases
Disease References
Pregnancy
  1. Bahado-Singh RO, Ertl R, Mandal R, Bjorndahl TC, Syngelaki A, Han B, Dong E, Liu PB, Alpay-Savasan Z, Wishart DS, Nicolaides KH: Metabolomic prediction of fetal congenital heart defect in the first trimester. Am J Obstet Gynecol. 2014 Sep;211(3):240.e1-240.e14. doi: 10.1016/j.ajog.2014.03.056. Epub 2014 Apr 1. [PubMed:24704061 ]
Obesity
  1. Simone Wahl, Christina Holzapfel, Zhonghao Yu, Michaela Breier, Ivan Kondofersky, Christiane Fuchs, Paula Singmann, Cornelia Prehn, Jerzy Adamski, Harald Grallert, Thomas Illig, Rui Wang-Sattler, Thomas Reinehr (2013). Metabolomics reveals determinants of weight loss during lifestyle intervention in obese children. Metabolomics.
Associated OMIM IDs
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FooDB IDNot Available
KNApSAcK IDNot Available
Chemspider ID24767118
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN IDNot Available
PubChem Compound53479053
PDB IDNot Available
ChEBI ID88894
Food Biomarker OntologyNot Available
VMH IDNot Available
MarkerDB IDNot Available
Good Scents IDNot Available
References
Synthesis ReferenceNot Available
Material Safety Data Sheet (MSDS)Not Available
General ReferencesNot Available

Only showing the first 10 proteins. There are 78 proteins in total.

Show all enzymes and transporters

Enzymes

Enzyme Details
1. Acyl-protein thioesterase 1
General function:
Involved in hydrolase activity
Specific function:
Hydrolyzes fatty acids from S-acylated cysteine residues in proteins such as trimeric G alpha proteins or HRAS. Has depalmitoylating activity and also low lysophospholipase activity.
Gene Name:
LYPLA1
Uniprot ID:
O75608
Molecular weight:
24669.355
Enzyme Details
2. Group XV phospholipase A2
General function:
Involved in phosphatidylcholine-sterol O-acyltransferase activity
Specific function:
Has transacylase and calcium-independent phospholipase A2 activity. Catalyzes the formation of 1-O-acyl-N-acetylsphingosine and the concomitant release of a lyso-phospholipid (By similarity). May have weak lysophospholipase activity.
Gene Name:
PLA2G15
Uniprot ID:
Q8NCC3
Molecular weight:
Not Available
Enzyme Details
3. Calcium-dependent phospholipase A2
General function:
Involved in phospholipase A2 activity
Specific function:
PA2 catalyzes the calcium-dependent hydrolysis of the 2-acyl groups in 3-sn-phosphoglycerides. This isozyme hydrolyzes more efficiently L-alpha-1-palmitoyl-2-oleoyl phosphatidylcholine than L-alpha-1-palmitoyl-2-arachidonyl phosphatidylcholine, L-alpha-1-palmitoyl-2-arachidonyl phosphatidylethanolamine, or L-alpha-1-stearoyl-2-arachidonyl phosphatidylinositol. May be involved in the production of lung surfactant, the remodeling or regulation of cardiac muscle.
Gene Name:
PLA2G5
Uniprot ID:
P39877
Molecular weight:
15674.065
Enzyme Details
4. Group IIF secretory phospholipase A2
General function:
Involved in phospholipase A2 activity
Specific function:
PA2 catalyzes the calcium-dependent hydrolysis of the 2-acyl groups in 3-sn-phosphoglycerides. Hydrolyzes phosphatidylglycerol versus phosphatidylcholine with a 15-fold preference.
Gene Name:
PLA2G2F
Uniprot ID:
Q9BZM2
Molecular weight:
23256.29
Enzyme Details
5. Cytosolic phospholipase A2
General function:
Involved in metabolic process
Specific function:
Selectively hydrolyzes arachidonyl phospholipids in the sn-2 position releasing arachidonic acid. Together with its lysophospholipid activity, it is implicated in the initiation of the inflammatory response.
Gene Name:
PLA2G4A
Uniprot ID:
P47712
Molecular weight:
85210.19
Enzyme Details
6. Phospholipase A2
General function:
Involved in phospholipase A2 activity
Specific function:
PA2 catalyzes the calcium-dependent hydrolysis of the 2-acyl groups in 3-sn-phosphoglycerides.
Gene Name:
PLA2G1B
Uniprot ID:
P04054
Molecular weight:
16359.535
Enzyme Details
7. Group XIIB secretory phospholipase A2-like protein
General function:
Involved in phospholipase A2 activity
Specific function:
Not known; does not seem to have catalytic activity.
Gene Name:
PLA2G12B
Uniprot ID:
Q9BX93
Molecular weight:
Not Available
Enzyme Details
8. Group 10 secretory phospholipase A2
General function:
Involved in phospholipase A2 activity
Specific function:
PA2 catalyzes the calcium-dependent hydrolysis of the 2-acyl groups in 3-sn-phosphoglycerides. Has a powerful potency for releasing arachidonic acid from cell membrane phospholipids. Prefers phosphatidylethanolamine and phosphatidylcholine liposomes to those of phosphatidylserine.
Gene Name:
PLA2G10
Uniprot ID:
O15496
Molecular weight:
18153.04
Enzyme Details
9. Group IIE secretory phospholipase A2
General function:
Involved in phospholipase A2 activity
Specific function:
PA2 catalyzes the calcium-dependent hydrolysis of the 2-acyl groups in 3-sn-phosphoglycerides. Has a preference for arachidonic-containing phospholipids.
Gene Name:
PLA2G2E
Uniprot ID:
Q9NZK7
Molecular weight:
15988.525
Enzyme Details
10. Acyl-protein thioesterase 2
General function:
Involved in hydrolase activity
Specific function:
May hydrolyze fatty acids from S-acylated cysteine residues in proteins such as trimeric G alpha proteins or HRAS. Has lysophospholipase activity (By similarity). Deacylates GAP43.
Gene Name:
LYPLA2
Uniprot ID:
O95372
Molecular weight:
24736.71

Transporters

Enzyme Details
1. Multidrug resistance protein 3
General function:
Involved in ATP binding
Specific function:
Mediates ATP-dependent export of organic anions and drugs from the cytoplasm. Hydrolyzes ATP with low efficiency. Human MDR3 is not capable of conferring drug resistance. Mediates the translocation of phosphatidylcholine across the canalicular membrane of the hepatocyte
Gene Name:
ABCB4
Uniprot ID:
P21439
Molecular weight:
141521.8

Only showing the first 10 proteins. There are 78 proteins in total.

Show all enzymes and transporters