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Showing metabocard for PGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R)) (HMDB0275946)

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Record Information
Version5.0
StatusPredicted
Creation Date2021-09-13 04:38:09 UTC
Update Date2022-11-30 20:00:31 UTC
HMDB IDHMDB0275946
Secondary Accession NumbersNone
Metabolite Identification
Common NamePGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R))
DescriptionPGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R)) is an oxidized phosphoglycerophosphate (PGP). Oxidized phosphoglycerophosphates are glycerophospholipids in which a phosphoglycerol moiety occupies a glycerol substitution site and at least one of the fatty acyl chains has undergone oxidation. As all oxidized lipids, oxidized phosphoglycerophosphates belong to a group of biomolecules that have a role as signaling molecules. The biosynthesis of oxidized lipids is mediated by several enzymatic families, including cyclooxygenases (COX), lipoxygenases (LOX) and cytochrome P450s (CYP). Non-enzymatically oxidized lipids are produced by uncontrolled oxidation through free radicals and are considered harmful to human health (PMID: 33329396 ). As is the case with diacylglycerols, phosphoglycerophosphates can have many different combinations of fatty acids of varying lengths, saturation and degrees of oxidation attached at the C-1 and C-2 positions. PGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R)), in particular, consists of one chain of one 22-methyltricosanoyl at the C-1 position and one chain of 11-Hydroxyeicosatetraenoyl at the C-2 position. Phospholipids are ubiquitous in nature and are key components of the lipid bilayer of cells, as well as being involved in metabolism and signaling. Similarly to what occurs with phospholipids, the fatty acid distribution at the C-1 and C-2 positions of glycerol within oxidized phospholipids is continually in flux, owing to phospholipid degradation and the continuous phospholipid remodeling that occurs while these molecules are in membranes. Oxidized PGPs can be synthesized via three different routes. In one route, the oxidized PGP is synthetized de novo following the same mechanisms as for PGPs but incorporating oxidized acyl chains (PMID: 33329396 ). An alternative is the transacylation of one of the non-oxidized acyl chains with an oxidized acylCoA (PMID: 33329396 ). The third pathway results from the oxidation of the acyl chain while still attached to the PGP backbone, mainely through the action of LOX (PMID: 33329396 ).
Structure
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MOL3D MOLSDF3D SDFPDB3D PDBSMILESInChI

MOL for HMDB0275946 (PGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R)))

PGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R))
  Mrv1652309132106382D          

 68 67  0  0  1  0            999 V2000
   -3.8020    0.3607    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9591    0.3596    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2447    0.7720    0.0000 P   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6571    1.4866    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.1679    0.0575    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.4699    1.1846    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.1844    0.7720    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.8989    1.1846    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.6134    0.7720    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.7177    0.3983    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.0032    0.8108    0.0000 P   0  0  0  0  0  0  0  0  0  0  0  0
    4.4156    1.5255    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.5905    0.0962    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.2885    1.2234    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.3114    1.8990    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4864    1.8990    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
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   -2.3824    0.3590    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
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   -1.9699   -0.3554    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7950   -0.3554    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5121    0.7695    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5121    1.5410    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -5.2262    0.3564    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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  1 22  1  0  0  0  0
  2 19  1  0  0  0  0
  3  2  1  0  0  0  0
  4  3  2  0  0  0  0
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  7  6  1  0  0  0  0
  8  7  1  0  0  0  0
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  9  8  1  0  0  0  0
  9 14  1  0  0  0  0
 11 10  1  0  0  0  0
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 66 67  1  0  0  0  0
 67 68  1  0  0  0  0
M  END
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3D MOL for HMDB0275946 (PGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R)))

HMDB0275946
     RDKit          3D
PGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R))
158157  0  0  0  0  0  0  0  0999 V2000
   10.1681    2.2252   -1.8760 C   0  0  0  0  0  0  0  0  0  0  0  0
    8.7785    1.7544   -2.3228 C   0  0  0  0  0  0  0  0  0  0  0  0
    8.2980    0.6177   -1.4807 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.9701    0.0665   -1.8256 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.7973    0.9935   -1.7340 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.5737    1.5364   -0.3839 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.5619    2.8048   -0.0277 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.7849    3.8369   -1.0104 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.7746    5.0943   -0.6554 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.5566    5.6563    0.6733 C   0  0  2  0  0  0  0  0  0  0  0  0
    6.2310    5.0651    1.7099 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.0771    5.8018    1.0393 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4029    6.6739    0.0473 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.3867    6.3429   -0.7206 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.7921    5.0042   -0.6525 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3214    5.0731   -0.3490 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5536    4.5185   -1.1972 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0098    4.5070   -1.0495 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6464    3.2010   -0.8791 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4253    2.0915   -1.8240 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0252    1.5359   -1.7856 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2195    1.6317   -2.7054 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6527    0.8877   -0.6375 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.5181    0.2892   -0.2584 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.3302   -1.2743   -0.2389 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5356   -1.8305    0.2454 O   0  0  0  0  0  0  0  0  0  0  0  0
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    3.3079   -5.1824    0.6637 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.6154   -5.6450   -0.7015 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5791   -5.6692   -1.7453 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4674   -6.6323   -1.3917 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4022   -6.6190   -2.4639 C   0  0  0  0  0  0  0  0  0  0  0  0
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   -2.9392   -3.4303   -2.4647 C   0  0  0  0  0  0  0  0  0  0  0  0
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   -5.2047    0.4431    0.6043 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.1145    0.9308    1.7166 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.6411    2.2713    1.3416 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.4665    2.3733    0.1263 C   0  0  0  0  0  0  0  0  0  0  0  0
   -8.7529    1.6649    0.0516 C   0  0  0  0  0  0  0  0  0  0  0  0
   -8.7363    0.1756    0.2015 C   0  0  0  0  0  0  0  0  0  0  0  0
   -9.8370    2.2340    0.9377 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0097    0.5866    1.1275 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2083    1.9289    1.2990 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.7546    2.2791    2.8712 P   0  0  0  0  0  5  0  0  0  0  0  0
    0.9797    3.4516    3.3745 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.4110    2.5856    2.7739 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.5144    0.9520    3.8946 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.8913    1.3539    5.0667 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.6815    0.1862    5.9984 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.8970   -0.3953    6.3423 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0705    0.6456    7.2292 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2684    1.2134    6.8404 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1284    1.7413    8.2014 P   0  0  0  0  0  5  0  0  0  0  0  0
   -2.8592    0.5523    8.7655 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9811    2.3394    9.3109 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1750    3.0125    7.8250 O   0  0  0  0  0  0  0  0  0  0  0  0
   10.2854    2.1411   -0.7858 H   0  0  0  0  0  0  0  0  0  0  0  0
   10.2822    3.2753   -2.2159 H   0  0  0  0  0  0  0  0  0  0  0  0
   10.9393    1.6292   -2.4254 H   0  0  0  0  0  0  0  0  0  0  0  0
    8.1178    2.6226   -2.1635 H   0  0  0  0  0  0  0  0  0  0  0  0
    8.8769    1.4692   -3.3877 H   0  0  0  0  0  0  0  0  0  0  0  0
    8.3322    0.8270   -0.3952 H   0  0  0  0  0  0  0  0  0  0  0  0
    9.0492   -0.2134   -1.6273 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.9425   -0.3697   -2.8689 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.7702   -0.7983   -1.1517 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.8935    0.3208   -1.9194 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.7738    1.7150   -2.5506 H   0  0  0  0  0  0  0  0  0  0  0  0
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M  END
Download

3D SDF for HMDB0275946 (PGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R)))

PGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R))
  Mrv1652309132106382D          

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 27 28  1  0  0  0  0
 28 29  1  0  0  0  0
 29 30  1  0  0  0  0
 30 31  1  0  0  0  0
 31 32  1  0  0  0  0
 32 33  1  0  0  0  0
 33 34  1  0  0  0  0
 34 35  1  0  0  0  0
 35 36  1  0  0  0  0
 36 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
 43 44  1  0  0  0  0
 44 45  1  0  0  0  0
 44 46  1  0  0  0  0
 47 48  2  0  0  0  0
 47 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  2  0  0  0  0
 53 54  1  0  0  0  0
 54 55  1  0  0  0  0
 55 56  2  0  0  0  0
 56 57  1  0  0  0  0
 57 58  1  0  0  0  0
 58 59  1  6  0  0  0
 58 60  1  0  0  0  0
 60 61  2  0  0  0  0
 61 62  1  0  0  0  0
 62 63  2  0  0  0  0
 63 64  1  0  0  0  0
 64 65  1  0  0  0  0
 65 66  1  0  0  0  0
 66 67  1  0  0  0  0
 67 68  1  0  0  0  0
M  END
> <DATABASE_ID>
HMDB0275946

> <DATABASE_NAME>
hmdb

> <SMILES>
[H][C@](O)(COP(O)(O)=O)COP(O)(=O)OC[C@@]([H])(COC(=O)CCCCCCCCCCCCCCCCCCCCC(C)C)OC(=O)CCC\C=C\C\C=C/C[C@@H](O)\C=C/C=C\CCCCC

> <INCHI_IDENTIFIER>
InChI=1S/C50H92O14P2/c1-4-5-6-7-21-27-32-37-46(51)38-33-28-23-20-25-30-35-40-50(54)64-48(44-63-66(58,59)62-42-47(52)41-61-65(55,56)57)43-60-49(53)39-34-29-24-19-17-15-13-11-9-8-10-12-14-16-18-22-26-31-36-45(2)3/h20-21,25,27-28,32-33,37,45-48,51-52H,4-19,22-24,26,29-31,34-36,38-44H2,1-3H3,(H,58,59)(H2,55,56,57)/b25-20+,27-21-,33-28-,37-32-/t46-,47-,48+/m0/s1

> <INCHI_KEY>
BJCJRUXZDWOMDH-TVEKWFQGSA-N

> <FORMULA>
C50H92O14P2

> <MOLECULAR_WEIGHT>
979.22

> <EXACT_MASS>
978.596231638

> <JCHEM_ACCEPTOR_COUNT>
9

> <JCHEM_ATOM_COUNT>
158

> <JCHEM_AVERAGE_POLARIZABILITY>
114.45901771747845

> <JCHEM_BIOAVAILABILITY>
0

> <JCHEM_DONOR_COUNT>
5

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
[(2S)-2-hydroxy-3-({hydroxy[(2R)-2-{[(5E,8Z,11R,12Z,14Z)-11-hydroxyicosa-5,8,12,14-tetraenoyl]oxy}-3-[(22-methyltricosanoyl)oxy]propoxy]phosphoryl}oxy)propoxy]phosphonic acid

> <ALOGPS_LOGP>
7.90

> <JCHEM_LOGP>
13.312262205666668

> <ALOGPS_LOGS>
-6.64

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
0

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-3

> <JCHEM_PKA>
2.0403035982300843

> <JCHEM_PKA_STRONGEST_ACIDIC>
1.3552538535580325

> <JCHEM_PKA_STRONGEST_BASIC>
-1.6091821790851042

> <JCHEM_POLAR_SURFACE_AREA>
215.57999999999998

> <JCHEM_REFRACTIVITY>
267.3233000000001

> <JCHEM_ROTATABLE_BOND_COUNT>
49

> <JCHEM_RULE_OF_FIVE>
0

> <ALOGPS_SOLUBILITY>
2.26e-04 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(2S)-2-hydroxy-3-{[hydroxy((2R)-2-{[(5E,8Z,11R,12Z,14Z)-11-hydroxyicosa-5,8,12,14-tetraenoyl]oxy}-3-[(22-methyltricosanoyl)oxy]propoxy)phosphoryl]oxy}propoxyphosphonic acid

> <JCHEM_VEBER_RULE>
0

$$$$
Download

3D-SDF for HMDB0275946 (PGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R)))

HMDB0275946
     RDKit          3D
PGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R))
158157  0  0  0  0  0  0  0  0999 V2000
   10.1681    2.2252   -1.8760 C   0  0  0  0  0  0  0  0  0  0  0  0
    8.7785    1.7544   -2.3228 C   0  0  0  0  0  0  0  0  0  0  0  0
    8.2980    0.6177   -1.4807 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.9701    0.0665   -1.8256 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.7973    0.9935   -1.7340 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.5737    1.5364   -0.3839 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.5619    2.8048   -0.0277 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.7849    3.8369   -1.0104 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.7746    5.0943   -0.6554 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.5566    5.6563    0.6733 C   0  0  2  0  0  0  0  0  0  0  0  0
    6.2310    5.0651    1.7099 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.0771    5.8018    1.0393 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4029    6.6739    0.0473 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.3867    6.3429   -0.7206 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.7921    5.0042   -0.6525 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3214    5.0731   -0.3490 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5536    4.5185   -1.1972 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0098    4.5070   -1.0495 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6464    3.2010   -0.8791 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4253    2.0915   -1.8240 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0252    1.5359   -1.7856 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2195    1.6317   -2.7054 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6527    0.8877   -0.6375 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.5181    0.2892   -0.2584 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.3302   -1.2743   -0.2389 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5356   -1.8305    0.2454 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.6775   -3.2356    0.3904 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.6960   -3.9039    0.0579 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.9157   -3.7915    0.9011 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.3079   -5.1824    0.6637 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.6154   -5.6450   -0.7015 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5791   -5.6692   -1.7453 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4674   -6.6323   -1.3917 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4022   -6.6190   -2.4639 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6849   -7.5992   -2.0741 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7739   -7.6377   -3.1284 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4571   -6.3084   -3.3271 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1359   -5.9102   -2.0573 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.8442   -4.5781   -2.1725 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9392   -3.4303   -2.4647 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6007   -2.1125   -2.6215 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.4020   -1.6054   -1.4809 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6981   -1.4282   -0.1872 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6162   -0.8964    0.8865 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.2047    0.4431    0.6043 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.1145    0.9308    1.7166 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.6411    2.2713    1.3416 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.4665    2.3733    0.1263 C   0  0  0  0  0  0  0  0  0  0  0  0
   -8.7529    1.6649    0.0516 C   0  0  0  0  0  0  0  0  0  0  0  0
   -8.7363    0.1756    0.2015 C   0  0  0  0  0  0  0  0  0  0  0  0
   -9.8370    2.2340    0.9377 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0097    0.5866    1.1275 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2083    1.9289    1.2990 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.7546    2.2791    2.8712 P   0  0  0  0  0  5  0  0  0  0  0  0
    0.9797    3.4516    3.3745 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.4110    2.5856    2.7739 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.5144    0.9520    3.8946 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.8913    1.3539    5.0667 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.6815    0.1862    5.9984 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.8970   -0.3953    6.3423 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0705    0.6456    7.2292 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2684    1.2134    6.8404 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1284    1.7413    8.2014 P   0  0  0  0  0  5  0  0  0  0  0  0
   -2.8592    0.5523    8.7655 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9811    2.3394    9.3109 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1750    3.0125    7.8250 O   0  0  0  0  0  0  0  0  0  0  0  0
   10.2854    2.1411   -0.7858 H   0  0  0  0  0  0  0  0  0  0  0  0
   10.2822    3.2753   -2.2159 H   0  0  0  0  0  0  0  0  0  0  0  0
   10.9393    1.6292   -2.4254 H   0  0  0  0  0  0  0  0  0  0  0  0
    8.1178    2.6226   -2.1635 H   0  0  0  0  0  0  0  0  0  0  0  0
    8.8769    1.4692   -3.3877 H   0  0  0  0  0  0  0  0  0  0  0  0
    8.3322    0.8270   -0.3952 H   0  0  0  0  0  0  0  0  0  0  0  0
    9.0492   -0.2134   -1.6273 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.9425   -0.3697   -2.8689 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.7702   -0.7983   -1.1517 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.8935    0.3208   -1.9194 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.7738    1.7150   -2.5506 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.3975    0.8063    0.4127 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.3826    3.0883    1.0006 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.9579    3.5688   -2.0402 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.9586    5.8060   -1.4916 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.9306    6.7272    0.6545 H   0  0  0  0  0  0  0  0  0  0  0  0
    7.0963    4.6802    1.5004 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.0968    6.4107    1.9979 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.5924    4.8796    1.2928 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.7962    7.7059   -0.0539 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.9897    7.1006   -1.4210 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.9638    4.5308   -1.6489 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.2132    4.3198    0.0875 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0315    5.5606    0.5330 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0541    4.0760   -2.0834 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2832    5.1822   -0.1746 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4295    4.9755   -1.9913 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4248    2.8150    0.1817 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7809    3.3921   -0.8280 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5904    2.3585   -2.8895 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0989    1.2316   -1.6111 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3616    0.3907   -0.9749 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5081   -1.4823    0.4151 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1944   -1.6187   -1.2812 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.9529   -3.6554    2.0519 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.8045   -3.1186    0.5993 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.2679   -5.3491    1.2691 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.5880   -5.8887    1.1914 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.4370   -4.9366   -1.0848 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.1962   -6.6339   -0.6834 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1689   -4.6729   -1.9439 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.0119   -6.0981   -2.7102 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.9442   -7.6710   -1.3735 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.1270   -6.4561   -0.3875 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.0237   -5.5859   -2.5566 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.8303   -6.9621   -3.4376 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0383   -7.3983   -1.0621 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2183   -8.6021   -2.0666 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2829   -8.0044   -4.0583 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4843   -8.4283   -2.8182 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7672   -5.5439   -3.7374 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2214   -6.4850   -4.1334 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4568   -5.9495   -1.1809 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9381   -6.6643   -1.8623 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3547   -4.4085   -1.2049 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6442   -4.7056   -2.9353 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1044   -3.3301   -1.7501 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4324   -3.6467   -3.4531 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8457   -1.3877   -2.9950 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3176   -2.2160   -3.4913 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.3547   -2.1899   -1.3996 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.7633   -0.5771   -1.7993 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8146   -0.7639   -0.3358 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2664   -2.3702    0.2222 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0244   -0.9018    1.8431 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.4058   -1.6756    1.0352 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.6358    0.4752   -0.3866 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3427    1.1804    0.5932 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.4117    1.1068    2.5896 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.8269    0.1972    2.0731 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.7210    2.9103    1.1495 H   0  0  0  0  0  0  0  0  0  0  0  0
   -7.1016    2.8037    2.2310 H   0  0  0  0  0  0  0  0  0  0  0  0
   -7.6543    3.4770   -0.0507 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.8278    2.0804   -0.7403 H   0  0  0  0  0  0  0  0  0  0  0  0
   -9.1442    1.8444   -1.0038 H   0  0  0  0  0  0  0  0  0  0  0  0
   -7.8538   -0.3318   -0.2156 H   0  0  0  0  0  0  0  0  0  0  0  0
   -9.5984   -0.2463   -0.4111 H   0  0  0  0  0  0  0  0  0  0  0  0
   -9.0050   -0.1512    1.2367 H   0  0  0  0  0  0  0  0  0  0  0  0
   -9.8251    3.3550    0.8701 H   0  0  0  0  0  0  0  0  0  0  0  0
   -9.8410    1.8541    1.9583 H   0  0  0  0  0  0  0  0  0  0  0  0
  -10.8171    1.9408    0.4794 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.2957    0.1375    1.8835 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.9698    0.0417    1.2662 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.6171    3.2820    3.4617 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0436    1.9061    4.8890 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5876    2.0865    5.5641 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.0997   -0.6105    5.4679 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7898   -1.2487    6.8169 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.5491    1.3669    7.7844 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2626   -0.2682    7.8375 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4219    2.9518    9.9749 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7853    3.6361    7.1827 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3  4  1  0
  4  5  1  0
  5  6  1  0
  6  7  2  0
  7  8  1  0
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  9 10  1  0
 10 11  1  0
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 13 14  2  0
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 65157  1  0
 66158  1  0
M  END
Download

PDB for HMDB0275946 (PGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R)))

HEADER    PROTEIN                                 13-SEP-21   NONE
TITLE     NULL                                                        
COMPND    MOLECULE: PGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R))           
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   13-SEP-21         0                                  
HETATM    1  O   UNK     0      -7.097   0.673   0.000  0.00  0.00           O+0
HETATM    2  O   UNK     0      -1.790   0.671   0.000  0.00  0.00           O+0
HETATM    3  P   UNK     0      -0.457   1.441   0.000  0.00  0.00           P+0
HETATM    4  O   UNK     0      -1.227   2.775   0.000  0.00  0.00           O+0
HETATM    5  O   UNK     0       0.313   0.107   0.000  0.00  0.00           O+0
HETATM    6  O   UNK     0       0.877   2.211   0.000  0.00  0.00           O+0
HETATM    7  C   UNK     0       2.211   1.441   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       3.545   2.211   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       4.878   1.441   0.000  0.00  0.00           C+0
HETATM   10  O   UNK     0       8.806   0.743   0.000  0.00  0.00           O+0
HETATM   11  P   UNK     0       7.473   1.513   0.000  0.00  0.00           P+0
HETATM   12  O   UNK     0       8.242   2.848   0.000  0.00  0.00           O+0
HETATM   13  O   UNK     0       6.702   0.180   0.000  0.00  0.00           O+0
HETATM   14  O   UNK     0       6.138   2.284   0.000  0.00  0.00           O+0
HETATM   15  H   UNK     0       4.315   3.545   0.000  0.00  0.00           H+0
HETATM   16  O   UNK     0       2.775   3.545   0.000  0.00  0.00           O+0
HETATM   17  C   UNK     0      -5.781   1.440   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0      -4.447   0.670   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0      -3.113   1.440   0.000  0.00  0.00           C+0
HETATM   20  H   UNK     0      -3.677  -0.663   0.000  0.00  0.00           H+0
HETATM   21  O   UNK     0      -5.217  -0.663   0.000  0.00  0.00           O+0
HETATM   22  C   UNK     0      -8.423   1.436   0.000  0.00  0.00           C+0
HETATM   23  O   UNK     0      -8.423   2.876   0.000  0.00  0.00           O+0
HETATM   24  C   UNK     0      -9.756   0.665   0.000  0.00  0.00           C+0
HETATM   25  C   UNK     0     -11.089   1.436   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0     -12.422   0.665   0.000  0.00  0.00           C+0
HETATM   27  C   UNK     0     -13.755   1.436   0.000  0.00  0.00           C+0
HETATM   28  C   UNK     0     -15.088   0.665   0.000  0.00  0.00           C+0
HETATM   29  C   UNK     0     -16.421   1.436   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0     -17.754   0.665   0.000  0.00  0.00           C+0
HETATM   31  C   UNK     0     -19.087   1.436   0.000  0.00  0.00           C+0
HETATM   32  C   UNK     0     -20.420   0.665   0.000  0.00  0.00           C+0
HETATM   33  C   UNK     0     -21.753   1.436   0.000  0.00  0.00           C+0
HETATM   34  C   UNK     0     -23.086   0.665   0.000  0.00  0.00           C+0
HETATM   35  C   UNK     0     -24.419   1.436   0.000  0.00  0.00           C+0
HETATM   36  C   UNK     0     -25.752   0.665   0.000  0.00  0.00           C+0
HETATM   37  C   UNK     0     -27.085   1.436   0.000  0.00  0.00           C+0
HETATM   38  C   UNK     0     -28.418   0.665   0.000  0.00  0.00           C+0
HETATM   39  C   UNK     0     -29.751   1.436   0.000  0.00  0.00           C+0
HETATM   40  C   UNK     0     -31.084   0.665   0.000  0.00  0.00           C+0
HETATM   41  C   UNK     0     -32.417   1.436   0.000  0.00  0.00           C+0
HETATM   42  C   UNK     0     -33.750   0.665   0.000  0.00  0.00           C+0
HETATM   43  C   UNK     0     -35.083   1.436   0.000  0.00  0.00           C+0
HETATM   44  C   UNK     0     -36.416   0.665   0.000  0.00  0.00           C+0
HETATM   45  C   UNK     0     -37.749   1.436   0.000  0.00  0.00           C+0
HETATM   46  C   UNK     0     -37.749  -0.103   0.000  0.00  0.00           C+0
HETATM   47  C   UNK     0      -6.551  -1.433   0.000  0.00  0.00           C+0
HETATM   48  O   UNK     0      -6.551  -2.873   0.000  0.00  0.00           O+0
HETATM   49  C   UNK     0      -7.884  -0.662   0.000  0.00  0.00           C+0
HETATM   50  C   UNK     0      -9.217  -1.433   0.000  0.00  0.00           C+0
HETATM   51  C   UNK     0     -10.550  -0.662   0.000  0.00  0.00           C+0
HETATM   52  C   UNK     0     -11.883  -1.433   0.000  0.00  0.00           C+0
HETATM   53  C   UNK     0     -13.216  -0.662   0.000  0.00  0.00           C+0
HETATM   54  C   UNK     0     -14.549  -1.433   0.000  0.00  0.00           C+0
HETATM   55  C   UNK     0     -15.882  -0.662   0.000  0.00  0.00           C+0
HETATM   56  C   UNK     0     -17.422  -0.662   0.000  0.00  0.00           C+0
HETATM   57  C   UNK     0     -18.755  -1.433   0.000  0.00  0.00           C+0
HETATM   58  C   UNK     0     -20.088  -0.662   0.000  0.00  0.00           C+0
HETATM   59  O   UNK     0     -20.088   0.778   0.000  0.00  0.00           O+0
HETATM   60  C   UNK     0     -21.421  -1.433   0.000  0.00  0.00           C+0
HETATM   61  C   UNK     0     -22.961  -1.433   0.000  0.00  0.00           C+0
HETATM   62  C   UNK     0     -24.294  -0.662   0.000  0.00  0.00           C+0
HETATM   63  C   UNK     0     -25.834  -0.662   0.000  0.00  0.00           C+0
HETATM   64  C   UNK     0     -27.167  -1.433   0.000  0.00  0.00           C+0
HETATM   65  C   UNK     0     -28.500  -0.662   0.000  0.00  0.00           C+0
HETATM   66  C   UNK     0     -29.833  -1.433   0.000  0.00  0.00           C+0
HETATM   67  C   UNK     0     -31.166  -0.662   0.000  0.00  0.00           C+0
HETATM   68  C   UNK     0     -32.499  -1.433   0.000  0.00  0.00           C+0
CONECT    1   22   17                                                       
CONECT    2   19    3                                                       
CONECT    3    2    4    5    6                                             
CONECT    4    3                                                            
CONECT    5    3                                                            
CONECT    6    3    7                                                       
CONECT    7    6    8                                                       
CONECT    8    7   16   15    9                                             
CONECT    9    8   14                                                       
CONECT   10   11                                                            
CONECT   11   10   12   13   14                                             
CONECT   12   11                                                            
CONECT   13   11                                                            
CONECT   14    9   11                                                       
CONECT   15    8                                                            
CONECT   16    8                                                            
CONECT   17    1   18                                                       
CONECT   18   17   20   21   19                                             
CONECT   19    2   18                                                       
CONECT   20   18                                                            
CONECT   21   18   47                                                       
CONECT   22    1   23   24                                                  
CONECT   23   22                                                            
CONECT   24   22   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   37                                                       
CONECT   37   36   38                                                       
CONECT   38   37   39                                                       
CONECT   39   38   40                                                       
CONECT   40   39   41                                                       
CONECT   41   40   42                                                       
CONECT   42   41   43                                                       
CONECT   43   42   44                                                       
CONECT   44   43   45   46                                                  
CONECT   45   44                                                            
CONECT   46   44                                                            
CONECT   47   21   48   49                                                  
CONECT   48   47                                                            
CONECT   49   47   50                                                       
CONECT   50   49   51                                                       
CONECT   51   50   52                                                       
CONECT   52   51   53                                                       
CONECT   53   52   54                                                       
CONECT   54   53   55                                                       
CONECT   55   54   56                                                       
CONECT   56   55   57                                                       
CONECT   57   56   58                                                       
CONECT   58   57   59   60                                                  
CONECT   59   58                                                            
CONECT   60   58   61                                                       
CONECT   61   60   62                                                       
CONECT   62   61   63                                                       
CONECT   63   62   64                                                       
CONECT   64   63   65                                                       
CONECT   65   64   66                                                       
CONECT   66   65   67                                                       
CONECT   67   66   68                                                       
CONECT   68   67                                                            
MASTER        0    0    0    0    0    0    0    0   68    0  134    0
END
Download

3D PDB for HMDB0275946 (PGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R)))

COMPND    HMDB0275946
HETATM    1  C1  UNL     1      10.168   2.225  -1.876  1.00  0.00           C  
HETATM    2  C2  UNL     1       8.778   1.754  -2.323  1.00  0.00           C  
HETATM    3  C3  UNL     1       8.298   0.618  -1.481  1.00  0.00           C  
HETATM    4  C4  UNL     1       6.970   0.066  -1.826  1.00  0.00           C  
HETATM    5  C5  UNL     1       5.797   0.993  -1.734  1.00  0.00           C  
HETATM    6  C6  UNL     1       5.574   1.536  -0.384  1.00  0.00           C  
HETATM    7  C7  UNL     1       5.562   2.805  -0.028  1.00  0.00           C  
HETATM    8  C8  UNL     1       5.785   3.837  -1.010  1.00  0.00           C  
HETATM    9  C9  UNL     1       5.775   5.094  -0.655  1.00  0.00           C  
HETATM   10  C10 UNL     1       5.557   5.656   0.673  1.00  0.00           C  
HETATM   11  O1  UNL     1       6.231   5.065   1.710  1.00  0.00           O  
HETATM   12  C11 UNL     1       4.077   5.802   1.039  1.00  0.00           C  
HETATM   13  C12 UNL     1       3.403   6.674   0.047  1.00  0.00           C  
HETATM   14  C13 UNL     1       2.387   6.343  -0.721  1.00  0.00           C  
HETATM   15  C14 UNL     1       1.792   5.004  -0.652  1.00  0.00           C  
HETATM   16  C15 UNL     1       0.321   5.073  -0.349  1.00  0.00           C  
HETATM   17  C16 UNL     1      -0.554   4.519  -1.197  1.00  0.00           C  
HETATM   18  C17 UNL     1      -2.010   4.507  -1.050  1.00  0.00           C  
HETATM   19  C18 UNL     1      -2.646   3.201  -0.879  1.00  0.00           C  
HETATM   20  C19 UNL     1      -2.425   2.092  -1.824  1.00  0.00           C  
HETATM   21  C20 UNL     1      -1.025   1.536  -1.786  1.00  0.00           C  
HETATM   22  O2  UNL     1      -0.219   1.632  -2.705  1.00  0.00           O  
HETATM   23  O3  UNL     1      -0.653   0.888  -0.638  1.00  0.00           O  
HETATM   24  C21 UNL     1       0.518   0.289  -0.258  1.00  0.00           C  
HETATM   25  C22 UNL     1       0.330  -1.274  -0.239  1.00  0.00           C  
HETATM   26  O4  UNL     1       1.536  -1.831   0.245  1.00  0.00           O  
HETATM   27  C23 UNL     1       1.678  -3.236   0.390  1.00  0.00           C  
HETATM   28  O5  UNL     1       0.696  -3.904   0.058  1.00  0.00           O  
HETATM   29  C24 UNL     1       2.916  -3.792   0.901  1.00  0.00           C  
HETATM   30  C25 UNL     1       3.308  -5.182   0.664  1.00  0.00           C  
HETATM   31  C26 UNL     1       3.615  -5.645  -0.701  1.00  0.00           C  
HETATM   32  C27 UNL     1       2.579  -5.669  -1.745  1.00  0.00           C  
HETATM   33  C28 UNL     1       1.467  -6.632  -1.392  1.00  0.00           C  
HETATM   34  C29 UNL     1       0.402  -6.619  -2.464  1.00  0.00           C  
HETATM   35  C30 UNL     1      -0.685  -7.599  -2.074  1.00  0.00           C  
HETATM   36  C31 UNL     1      -1.774  -7.638  -3.128  1.00  0.00           C  
HETATM   37  C32 UNL     1      -2.457  -6.308  -3.327  1.00  0.00           C  
HETATM   38  C33 UNL     1      -3.136  -5.910  -2.057  1.00  0.00           C  
HETATM   39  C34 UNL     1      -3.844  -4.578  -2.173  1.00  0.00           C  
HETATM   40  C35 UNL     1      -2.939  -3.430  -2.465  1.00  0.00           C  
HETATM   41  C36 UNL     1      -3.601  -2.113  -2.622  1.00  0.00           C  
HETATM   42  C37 UNL     1      -4.402  -1.605  -1.481  1.00  0.00           C  
HETATM   43  C38 UNL     1      -3.698  -1.428  -0.187  1.00  0.00           C  
HETATM   44  C39 UNL     1      -4.616  -0.896   0.887  1.00  0.00           C  
HETATM   45  C40 UNL     1      -5.205   0.443   0.604  1.00  0.00           C  
HETATM   46  C41 UNL     1      -6.114   0.931   1.717  1.00  0.00           C  
HETATM   47  C42 UNL     1      -6.641   2.271   1.342  1.00  0.00           C  
HETATM   48  C43 UNL     1      -7.467   2.373   0.126  1.00  0.00           C  
HETATM   49  C44 UNL     1      -8.753   1.665   0.052  1.00  0.00           C  
HETATM   50  C45 UNL     1      -8.736   0.176   0.201  1.00  0.00           C  
HETATM   51  C46 UNL     1      -9.837   2.234   0.938  1.00  0.00           C  
HETATM   52  C47 UNL     1       1.010   0.587   1.128  1.00  0.00           C  
HETATM   53  O6  UNL     1       1.208   1.929   1.299  1.00  0.00           O  
HETATM   54  P1  UNL     1       1.755   2.279   2.871  1.00  0.00           P  
HETATM   55  O7  UNL     1       0.980   3.452   3.374  1.00  0.00           O  
HETATM   56  O8  UNL     1       3.411   2.586   2.774  1.00  0.00           O  
HETATM   57  O9  UNL     1       1.514   0.952   3.895  1.00  0.00           O  
HETATM   58  C48 UNL     1       0.891   1.354   5.067  1.00  0.00           C  
HETATM   59  C49 UNL     1       0.682   0.186   5.998  1.00  0.00           C  
HETATM   60  O10 UNL     1       1.897  -0.395   6.342  1.00  0.00           O  
HETATM   61  C50 UNL     1      -0.071   0.646   7.229  1.00  0.00           C  
HETATM   62  O11 UNL     1      -1.268   1.213   6.840  1.00  0.00           O  
HETATM   63  P2  UNL     1      -2.128   1.741   8.201  1.00  0.00           P  
HETATM   64  O12 UNL     1      -2.859   0.552   8.766  1.00  0.00           O  
HETATM   65  O13 UNL     1      -0.981   2.339   9.311  1.00  0.00           O  
HETATM   66  O14 UNL     1      -3.175   3.012   7.825  1.00  0.00           O  
HETATM   67  H1  UNL     1      10.285   2.141  -0.786  1.00  0.00           H  
HETATM   68  H2  UNL     1      10.282   3.275  -2.216  1.00  0.00           H  
HETATM   69  H3  UNL     1      10.939   1.629  -2.425  1.00  0.00           H  
HETATM   70  H4  UNL     1       8.118   2.623  -2.164  1.00  0.00           H  
HETATM   71  H5  UNL     1       8.877   1.469  -3.388  1.00  0.00           H  
HETATM   72  H6  UNL     1       8.332   0.827  -0.395  1.00  0.00           H  
HETATM   73  H7  UNL     1       9.049  -0.213  -1.627  1.00  0.00           H  
HETATM   74  H8  UNL     1       6.942  -0.370  -2.869  1.00  0.00           H  
HETATM   75  H9  UNL     1       6.770  -0.798  -1.152  1.00  0.00           H  
HETATM   76  H10 UNL     1       4.893   0.321  -1.919  1.00  0.00           H  
HETATM   77  H11 UNL     1       5.774   1.715  -2.551  1.00  0.00           H  
HETATM   78  H12 UNL     1       5.397   0.806   0.413  1.00  0.00           H  
HETATM   79  H13 UNL     1       5.383   3.088   1.001  1.00  0.00           H  
HETATM   80  H14 UNL     1       5.958   3.569  -2.040  1.00  0.00           H  
HETATM   81  H15 UNL     1       5.959   5.806  -1.492  1.00  0.00           H  
HETATM   82  H16 UNL     1       5.931   6.727   0.655  1.00  0.00           H  
HETATM   83  H17 UNL     1       7.096   4.680   1.500  1.00  0.00           H  
HETATM   84  H18 UNL     1       4.097   6.411   1.998  1.00  0.00           H  
HETATM   85  H19 UNL     1       3.592   4.880   1.293  1.00  0.00           H  
HETATM   86  H20 UNL     1       3.796   7.706  -0.054  1.00  0.00           H  
HETATM   87  H21 UNL     1       1.990   7.101  -1.421  1.00  0.00           H  
HETATM   88  H22 UNL     1       1.964   4.531  -1.649  1.00  0.00           H  
HETATM   89  H23 UNL     1       2.213   4.320   0.087  1.00  0.00           H  
HETATM   90  H24 UNL     1      -0.031   5.561   0.533  1.00  0.00           H  
HETATM   91  H25 UNL     1      -0.054   4.076  -2.083  1.00  0.00           H  
HETATM   92  H26 UNL     1      -2.283   5.182  -0.175  1.00  0.00           H  
HETATM   93  H27 UNL     1      -2.429   4.975  -1.991  1.00  0.00           H  
HETATM   94  H28 UNL     1      -2.425   2.815   0.182  1.00  0.00           H  
HETATM   95  H29 UNL     1      -3.781   3.392  -0.828  1.00  0.00           H  
HETATM   96  H30 UNL     1      -2.590   2.359  -2.890  1.00  0.00           H  
HETATM   97  H31 UNL     1      -3.099   1.232  -1.611  1.00  0.00           H  
HETATM   98  H32 UNL     1       1.362   0.391  -0.975  1.00  0.00           H  
HETATM   99  H33 UNL     1      -0.508  -1.482   0.415  1.00  0.00           H  
HETATM  100  H34 UNL     1       0.194  -1.619  -1.281  1.00  0.00           H  
HETATM  101  H35 UNL     1       2.953  -3.655   2.052  1.00  0.00           H  
HETATM  102  H36 UNL     1       3.804  -3.119   0.599  1.00  0.00           H  
HETATM  103  H37 UNL     1       4.268  -5.349   1.269  1.00  0.00           H  
HETATM  104  H38 UNL     1       2.588  -5.889   1.191  1.00  0.00           H  
HETATM  105  H39 UNL     1       4.437  -4.937  -1.085  1.00  0.00           H  
HETATM  106  H40 UNL     1       4.196  -6.634  -0.683  1.00  0.00           H  
HETATM  107  H41 UNL     1       2.169  -4.673  -1.944  1.00  0.00           H  
HETATM  108  H42 UNL     1       3.012  -6.098  -2.710  1.00  0.00           H  
HETATM  109  H43 UNL     1       1.944  -7.671  -1.374  1.00  0.00           H  
HETATM  110  H44 UNL     1       1.127  -6.456  -0.388  1.00  0.00           H  
HETATM  111  H45 UNL     1       0.024  -5.586  -2.557  1.00  0.00           H  
HETATM  112  H46 UNL     1       0.830  -6.962  -3.438  1.00  0.00           H  
HETATM  113  H47 UNL     1      -1.038  -7.398  -1.062  1.00  0.00           H  
HETATM  114  H48 UNL     1      -0.218  -8.602  -2.067  1.00  0.00           H  
HETATM  115  H49 UNL     1      -1.283  -8.004  -4.058  1.00  0.00           H  
HETATM  116  H50 UNL     1      -2.484  -8.428  -2.818  1.00  0.00           H  
HETATM  117  H51 UNL     1      -1.767  -5.544  -3.737  1.00  0.00           H  
HETATM  118  H52 UNL     1      -3.221  -6.485  -4.133  1.00  0.00           H  
HETATM  119  H53 UNL     1      -2.457  -5.950  -1.181  1.00  0.00           H  
HETATM  120  H54 UNL     1      -3.938  -6.664  -1.862  1.00  0.00           H  
HETATM  121  H55 UNL     1      -4.355  -4.408  -1.205  1.00  0.00           H  
HETATM  122  H56 UNL     1      -4.644  -4.706  -2.935  1.00  0.00           H  
HETATM  123  H57 UNL     1      -2.104  -3.330  -1.750  1.00  0.00           H  
HETATM  124  H58 UNL     1      -2.432  -3.647  -3.453  1.00  0.00           H  
HETATM  125  H59 UNL     1      -2.846  -1.388  -2.995  1.00  0.00           H  
HETATM  126  H60 UNL     1      -4.318  -2.216  -3.491  1.00  0.00           H  
HETATM  127  H61 UNL     1      -5.355  -2.190  -1.400  1.00  0.00           H  
HETATM  128  H62 UNL     1      -4.763  -0.577  -1.799  1.00  0.00           H  
HETATM  129  H63 UNL     1      -2.815  -0.764  -0.336  1.00  0.00           H  
HETATM  130  H64 UNL     1      -3.266  -2.370   0.222  1.00  0.00           H  
HETATM  131  H65 UNL     1      -4.024  -0.902   1.843  1.00  0.00           H  
HETATM  132  H66 UNL     1      -5.406  -1.676   1.035  1.00  0.00           H  
HETATM  133  H67 UNL     1      -5.636   0.475  -0.387  1.00  0.00           H  
HETATM  134  H68 UNL     1      -4.343   1.180   0.593  1.00  0.00           H  
HETATM  135  H69 UNL     1      -5.412   1.107   2.590  1.00  0.00           H  
HETATM  136  H70 UNL     1      -6.827   0.197   2.073  1.00  0.00           H  
HETATM  137  H71 UNL     1      -5.721   2.910   1.150  1.00  0.00           H  
HETATM  138  H72 UNL     1      -7.102   2.804   2.231  1.00  0.00           H  
HETATM  139  H73 UNL     1      -7.654   3.477  -0.051  1.00  0.00           H  
HETATM  140  H74 UNL     1      -6.828   2.080  -0.740  1.00  0.00           H  
HETATM  141  H75 UNL     1      -9.144   1.844  -1.004  1.00  0.00           H  
HETATM  142  H76 UNL     1      -7.854  -0.332  -0.216  1.00  0.00           H  
HETATM  143  H77 UNL     1      -9.598  -0.246  -0.411  1.00  0.00           H  
HETATM  144  H78 UNL     1      -9.005  -0.151   1.237  1.00  0.00           H  
HETATM  145  H79 UNL     1      -9.825   3.355   0.870  1.00  0.00           H  
HETATM  146  H80 UNL     1      -9.841   1.854   1.958  1.00  0.00           H  
HETATM  147  H81 UNL     1     -10.817   1.941   0.479  1.00  0.00           H  
HETATM  148  H82 UNL     1       0.296   0.138   1.884  1.00  0.00           H  
HETATM  149  H83 UNL     1       1.970   0.042   1.266  1.00  0.00           H  
HETATM  150  H84 UNL     1       3.617   3.282   3.462  1.00  0.00           H  
HETATM  151  H85 UNL     1      -0.044   1.906   4.889  1.00  0.00           H  
HETATM  152  H86 UNL     1       1.588   2.087   5.564  1.00  0.00           H  
HETATM  153  H87 UNL     1       0.100  -0.610   5.468  1.00  0.00           H  
HETATM  154  H88 UNL     1       1.790  -1.249   6.817  1.00  0.00           H  
HETATM  155  H89 UNL     1       0.549   1.367   7.784  1.00  0.00           H  
HETATM  156  H90 UNL     1      -0.263  -0.268   7.838  1.00  0.00           H  
HETATM  157  H91 UNL     1      -1.422   2.952   9.975  1.00  0.00           H  
HETATM  158  H92 UNL     1      -2.785   3.636   7.183  1.00  0.00           H  
CONECT    1    2   67   68   69
CONECT    2    3   70   71
CONECT    3    4   72   73
CONECT    4    5   74   75
CONECT    5    6   76   77
CONECT    6    7    7   78
CONECT    7    8   79
CONECT    8    9    9   80
CONECT    9   10   81
CONECT   10   11   12   82
CONECT   11   83
CONECT   12   13   84   85
CONECT   13   14   14   86
CONECT   14   15   87
CONECT   15   16   88   89
CONECT   16   17   17   90
CONECT   17   18   91
CONECT   18   19   92   93
CONECT   19   20   94   95
CONECT   20   21   96   97
CONECT   21   22   22   23
CONECT   23   24
CONECT   24   25   52   98
CONECT   25   26   99  100
CONECT   26   27
CONECT   27   28   28   29
CONECT   29   30  101  102
CONECT   30   31  103  104
CONECT   31   32  105  106
CONECT   32   33  107  108
CONECT   33   34  109  110
CONECT   34   35  111  112
CONECT   35   36  113  114
CONECT   36   37  115  116
CONECT   37   38  117  118
CONECT   38   39  119  120
CONECT   39   40  121  122
CONECT   40   41  123  124
CONECT   41   42  125  126
CONECT   42   43  127  128
CONECT   43   44  129  130
CONECT   44   45  131  132
CONECT   45   46  133  134
CONECT   46   47  135  136
CONECT   47   48  137  138
CONECT   48   49  139  140
CONECT   49   50   51  141
CONECT   50  142  143  144
CONECT   51  145  146  147
CONECT   52   53  148  149
CONECT   53   54
CONECT   54   55   55   56   57
CONECT   56  150
CONECT   57   58
CONECT   58   59  151  152
CONECT   59   60   61  153
CONECT   60  154
CONECT   61   62  155  156
CONECT   62   63
CONECT   63   64   64   65   66
CONECT   65  157
CONECT   66  158
END
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SMILES for HMDB0275946 (PGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R)))

[H][C@](O)(COP(O)(O)=O)COP(O)(=O)OC[C@@]([H])(COC(=O)CCCCCCCCCCCCCCCCCCCCC(C)C)OC(=O)CCC\C=C\C\C=C/C[C@@H](O)\C=C/C=C\CCCCC
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INCHI for HMDB0275946 (PGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R)))

InChI=1S/C50H92O14P2/c1-4-5-6-7-21-27-32-37-46(51)38-33-28-23-20-25-30-35-40-50(54)64-48(44-63-66(58,59)62-42-47(52)41-61-65(55,56)57)43-60-49(53)39-34-29-24-19-17-15-13-11-9-8-10-12-14-16-18-22-26-31-36-45(2)3/h20-21,25,27-28,32-33,37,45-48,51-52H,4-19,22-24,26,29-31,34-36,38-44H2,1-3H3,(H,58,59)(H2,55,56,57)/b25-20+,27-21-,33-28-,37-32-/t46-,47-,48+/m0/s1
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View in JSmolView Stereo Labels
Synonyms
ValueSource
[(2S)-2-Hydroxy-3-({hydroxy[(2R)-2-{[(5E,8Z,11R,12Z,14Z)-11-hydroxyicosa-5,8,12,14-tetraenoyl]oxy}-3-[(22-methyltricosanoyl)oxy]propoxy]phosphoryl}oxy)propoxy]phosphonateGenerator
Chemical FormulaC50H92O14P2
Average Molecular Weight979.22
Monoisotopic Molecular Weight978.596231638
IUPAC Name[(2S)-2-hydroxy-3-({hydroxy[(2R)-2-{[(5E,8Z,11R,12Z,14Z)-11-hydroxyicosa-5,8,12,14-tetraenoyl]oxy}-3-[(22-methyltricosanoyl)oxy]propoxy]phosphoryl}oxy)propoxy]phosphonic acid
Traditional Name(2S)-2-hydroxy-3-{[hydroxy((2R)-2-{[(5E,8Z,11R,12Z,14Z)-11-hydroxyicosa-5,8,12,14-tetraenoyl]oxy}-3-[(22-methyltricosanoyl)oxy]propoxy)phosphoryl]oxy}propoxyphosphonic acid
CAS Registry NumberNot Available
SMILES
[H][C@](O)(COP(O)(O)=O)COP(O)(=O)OC[C@@]([H])(COC(=O)CCCCCCCCCCCCCCCCCCCCC(C)C)OC(=O)CCC\C=C\C\C=C/C[C@@H](O)\C=C/C=C\CCCCC
InChI Identifier
InChI=1S/C50H92O14P2/c1-4-5-6-7-21-27-32-37-46(51)38-33-28-23-20-25-30-35-40-50(54)64-48(44-63-66(58,59)62-42-47(52)41-61-65(55,56)57)43-60-49(53)39-34-29-24-19-17-15-13-11-9-8-10-12-14-16-18-22-26-31-36-45(2)3/h20-21,25,27-28,32-33,37,45-48,51-52H,4-19,22-24,26,29-31,34-36,38-44H2,1-3H3,(H,58,59)(H2,55,56,57)/b25-20+,27-21-,33-28-,37-32-/t46-,47-,48+/m0/s1
InChI KeyBJCJRUXZDWOMDH-TVEKWFQGSA-N
Chemical Taxonomy
ClassificationNot classified
Ontology
Physiological effectNot Available
DispositionNot Available
ProcessNot Available
RoleNot Available
Physical Properties
StateNot Available
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
logP7.9ALOGPS
logP13.31ChemAxon
logS-6.6ALOGPS
pKa (Strongest Acidic)1.36ChemAxon
pKa (Strongest Basic)-1.6ChemAxon
Physiological Charge-3ChemAxon
Hydrogen Acceptor Count9ChemAxon
Hydrogen Donor Count5ChemAxon
Polar Surface Area215.58 ŲChemAxon
Rotatable Bond Count49ChemAxon
Refractivity267.32 m³·mol⁻¹ChemAxon
Polarizability114.46 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
AllCCS[M+H]+318.54532859911
AllCCS[M+H-H2O]+318.69732859911
AllCCS[M+Na]+318.32532859911
AllCCS[M+NH4]+318.37832859911
AllCCS[M-H]-314.30332859911
AllCCS[M+Na-2H]-321.36232859911
AllCCS[M+HCOO]-329.02732859911
DeepCCS[M+H]+294.71130932474
DeepCCS[M-H]-292.31630932474
DeepCCS[M-2H]-325.19830932474
DeepCCS[M+Na]+300.62430932474

Predicted Kovats Retention Indices

Not Available
Spectra

MS/MS Spectra

Spectrum TypeDescriptionSplash KeyDeposition DateSourceView
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R)) 10V, Negative-QTOFsplash10-004i-0010000009-4f323f478e9fe4c2238a2021-10-19Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R)) 20V, Negative-QTOFsplash10-0kxs-5097048018-41c05c67c35915f1dad12021-10-19Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R)) 40V, Negative-QTOFsplash10-0f6w-4096043010-06339768f98aa9feae852021-10-19Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R)) 10V, Positive-QTOFsplash10-03fr-4300000439-6a9ca889b34d0f8e84652021-10-19Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R)) 20V, Positive-QTOFsplash10-08fr-3400000590-892b78deea2ab5c658fc2021-10-19Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - PGP(i-24:0/20:4(5E,8Z,12Z,14Z)-OH(11R)) 40V, Positive-QTOFsplash10-0udi-5296113300-b777a7ae8b967a180c6f2021-10-19Wishart LabView Spectrum
Biological Properties
Cellular LocationsNot Available
Biospecimen LocationsNot Available
Tissue LocationsNot Available
Pathways
Normal Concentrations
Not Available
Abnormal Concentrations
Not Available
Associated Disorders and Diseases
Disease ReferencesNone
Associated OMIM IDsNone
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FooDB IDNot Available
KNApSAcK IDNot Available
Chemspider IDNot Available
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkNot Available
METLIN IDNot Available
PubChem CompoundNot Available
PDB IDNot Available
ChEBI IDNot Available
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 References
  1. Hajeyah AA, Griffiths WJ, Wang Y, Finch AJ, O'Donnell VB: The Biosynthesis of Enzymatically Oxidized Lipids. Front Endocrinol (Lausanne). 2020 Nov 19;11:591819. doi: 10.3389/fendo.2020.591819. eCollection 2020. [PubMed:33329396 ]