MiMeDB: Showing metabocard for Geranyl diphosphate (MMDBc0031147)

Record Information

Version

1.0

Status

Detected and Quantified

Creation Date

2021-11-18 00:37:13 UTC

Update Date

2022-08-31 17:58:54 UTC

Metabolite ID

MMDBc0031147

Metabolite Identification

Common Name

Geranyl diphosphate

Description

Geranyl diphosphate is regarded as a key intermediate in the steroid, isoprene and terpene biosynthesis pathways and is used in the biosynthesis of farnesyl pyrophosphate, geranylgeranyl pyrophosphate, cholesterol, terpenes and terpenoids. (wikipedia).‚Üµ

Structure

MOL SDF PDB SMILES InChI


  Mrv0541 10101211182D          

 53 52  0  0  0  0            999 V2000
    5.6645    6.1283    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.6645    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.1763    3.4914    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4618    2.2539    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9520   -6.0177    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145   -5.3033    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4618   -2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0329   -2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1895    3.2704    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1105    3.4914    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145   -2.4454    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3184    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.0145    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0329    3.0789    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5395   -3.8743    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0329   -0.8250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.4270    5.4138    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7474    3.4914    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9520   -4.5888    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7474   -1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1895    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3184    3.4914    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9520   -3.1599    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0329    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9520    3.9849    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6039    2.2539    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9520   -1.7309    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6039    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5395    3.2704    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1105    1.8414    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5395   -1.0164    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1105    0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.2520    5.4138    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4618    3.0789    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5395   -5.3033    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7474   -2.0625    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.7770    3.9849    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6039    3.0789    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5395   -2.4454    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3184    0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2539    1.4289    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.2539    0.8250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.9520    2.5559    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.8250    2.2539    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.9520   -0.3020    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.8250    0.0000    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.1270    1.1270    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.5395    1.8414    0.0000 P   0  0  0  0  0  0  0  0  0  0  0  0
    1.5395    0.4125    0.0000 P   0  0  0  0  0  0  0  0  0  0  0  0
    1.5395    4.6993    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3184    1.8414    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.7770   -1.7309    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6039   -0.8250    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
 17 13  1  0  0  0  0
 18 14  1  0  0  0  0
 19 15  1  0  0  0  0
 20 16  1  0  0  0  0
 21 13  1  0  0  0  0
 22 14  1  0  0  0  0
 23 15  1  0  0  0  0
 24 16  1  0  0  0  0
 29 25  1  0  0  0  0
 30 26  1  0  0  0  0
 31 27  1  0  0  0  0
 32 28  1  0  0  0  0
 33  1  1  0  0  0  0
 33  2  1  0  0  0  0
 33 17  2  0  0  0  0
 34  3  1  0  0  0  0
 34  4  1  0  0  0  0
 34 18  2  0  0  0  0
 35  5  1  0  0  0  0
 35  6  1  0  0  0  0
 35 19  2  0  0  0  0
 36  7  1  0  0  0  0
 36  8  1  0  0  0  0
 36 20  2  0  0  0  0
 37  9  1  0  0  0  0
 37 21  1  0  0  0  0
 37 25  2  0  0  0  0
 38 10  1  0  0  0  0
 38 22  1  0  0  0  0
 38 26  2  0  0  0  0
 39 11  1  0  0  0  0
 39 23  1  0  0  0  0
 39 27  2  0  0  0  0
 40 12  1  0  0  0  0
 40 24  1  0  0  0  0
 40 28  2  0  0  0  0
 43 29  1  0  0  0  0
 44 30  1  0  0  0  0
 45 31  1  0  0  0  0
 46 32  1  0  0  0  0
 48 41  2  0  0  0  0
 48 43  1  0  0  0  0
 48 44  1  0  0  0  0
 48 47  1  0  0  0  0
 49 42  2  0  0  0  0
 49 45  1  0  0  0  0
 49 46  1  0  0  0  0
 49 47  1  0  0  0  0
 50 25  1  0  0  0  0
 51 26  1  0  0  0  0
 52 27  1  0  0  0  0
 53 28  1  0  0  0  0
M  END


  Mrv0541 10101211182D          

 53 52  0  0  0  0            999 V2000
    5.6645    6.1283    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.6645    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.1763    3.4914    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4618    2.2539    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9520   -6.0177    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145   -5.3033    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4618   -2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0329   -2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1895    3.2704    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1105    3.4914    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145   -2.4454    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3184    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.0145    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0329    3.0789    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5395   -3.8743    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0329   -0.8250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.4270    5.4138    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7474    3.4914    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9520   -4.5888    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7474   -1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1895    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3184    3.4914    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9520   -3.1599    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0329    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9520    3.9849    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6039    2.2539    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9520   -1.7309    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6039    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5395    3.2704    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1105    1.8414    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5395   -1.0164    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1105    0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.2520    5.4138    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4618    3.0789    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5395   -5.3033    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7474   -2.0625    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.7770    3.9849    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6039    3.0789    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5395   -2.4454    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3184    0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2539    1.4289    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.2539    0.8250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.9520    2.5559    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.8250    2.2539    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.9520   -0.3020    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.8250    0.0000    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.1270    1.1270    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.5395    1.8414    0.0000 P   0  0  0  0  0  0  0  0  0  0  0  0
    1.5395    0.4125    0.0000 P   0  0  0  0  0  0  0  0  0  0  0  0
    1.5395    4.6993    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3184    1.8414    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.7770   -1.7309    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6039   -0.8250    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
 17 13  1  0  0  0  0
 18 14  1  0  0  0  0
 19 15  1  0  0  0  0
 20 16  1  0  0  0  0
 21 13  1  0  0  0  0
 22 14  1  0  0  0  0
 23 15  1  0  0  0  0
 24 16  1  0  0  0  0
 29 25  1  0  0  0  0
 30 26  1  0  0  0  0
 31 27  1  0  0  0  0
 32 28  1  0  0  0  0
 33  1  1  0  0  0  0
 33  2  1  0  0  0  0
 33 17  2  0  0  0  0
 34  3  1  0  0  0  0
 34  4  1  0  0  0  0
 34 18  2  0  0  0  0
 35  5  1  0  0  0  0
 35  6  1  0  0  0  0
 35 19  2  0  0  0  0
 36  7  1  0  0  0  0
 36  8  1  0  0  0  0
 36 20  2  0  0  0  0
 37  9  1  0  0  0  0
 37 21  1  0  0  0  0
 37 25  2  0  0  0  0
 38 10  1  0  0  0  0
 38 22  1  0  0  0  0
 38 26  2  0  0  0  0
 39 11  1  0  0  0  0
 39 23  1  0  0  0  0
 39 27  2  0  0  0  0
 40 12  1  0  0  0  0
 40 24  1  0  0  0  0
 40 28  2  0  0  0  0
 43 29  1  0  0  0  0
 44 30  1  0  0  0  0
 45 31  1  0  0  0  0
 46 32  1  0  0  0  0
 48 41  2  0  0  0  0
 48 43  1  0  0  0  0
 48 44  1  0  0  0  0
 48 47  1  0  0  0  0
 49 42  2  0  0  0  0
 49 45  1  0  0  0  0
 49 46  1  0  0  0  0
 49 47  1  0  0  0  0
 50 25  1  0  0  0  0
 51 26  1  0  0  0  0
 52 27  1  0  0  0  0
 53 28  1  0  0  0  0
M  END
> <DATABASE_ID>
MMDBc0031147

> <DATABASE_NAME>
MIME

> <SMILES>
[H]\C(COP(=O)(OC\C([H])=C(/C)CCC=C(C)C)OP(=O)(OC\C([H])=C(/C)CCC=C(C)C)OC\C([H])=C(/C)CCC=C(C)C)=C(\C)CCC=C(C)C

> <INCHI_IDENTIFIER>
InChI=1S/C40H68O7P2/c1-33(2)17-13-21-37(9)25-29-43-48(41,44-30-26-38(10)22-14-18-34(3)4)47-49(42,45-31-27-39(11)23-15-19-35(5)6)46-32-28-40(12)24-16-20-36(7)8/h17-20,25-28H,13-16,21-24,29-32H2,1-12H3/b37-25+,38-26+,39-27+,40-28+

> <INCHI_KEY>
CNCHONBZLLTYBW-NISPWTRESA-N

> <FORMULA>
C40H68O7P2

> <MOLECULAR_WEIGHT>
722.9112

> <EXACT_MASS>
722.444027554

> <JCHEM_ACCEPTOR_COUNT>
2

> <JCHEM_AVERAGE_POLARIZABILITY>
85.35835529437932

> <JCHEM_BIOAVAILABILITY>
0

> <JCHEM_DONOR_COUNT>
0

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
bis(2E)-3,7-dimethylocta-2,6-dien-1-yl {[bis({[(2E)-3,7-dimethylocta-2,6-dien-1-yl]oxy})phosphoryl]oxy}phosphonate

> <ALOGPS_LOGP>
6.97

> <JCHEM_LOGP>
12.153782047666665

> <ALOGPS_LOGS>
-6.16

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
0

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_BASIC>
-9.101038459893346

> <JCHEM_POLAR_SURFACE_AREA>
80.29000000000002

> <JCHEM_REFRACTIVITY>
215.13719999999998

> <JCHEM_ROTATABLE_BOND_COUNT>
26

> <JCHEM_RULE_OF_FIVE>
0

> <ALOGPS_SOLUBILITY>
5.00e-04 g/l

> <JCHEM_TRADITIONAL_IUPAC>
bis(2E)-3,7-dimethylocta-2,6-dien-1-yl {bis[(2E)-3,7-dimethylocta-2,6-dien-1-yl]oxyphosphoryl}oxyphosphonate

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 10-OCT-12   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   10-OCT-12         0                                  
HETATM    1  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   23  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   24  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   25  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   27  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   28  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   29  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   31  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   32  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   33  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   34  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   35  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   36  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   37  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   38  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   39  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   40  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   41  O   UNK     0       0.000   0.000   0.000  0.00  0.00           O+0
HETATM   42  O   UNK     0       0.000   0.000   0.000  0.00  0.00           O+0
HETATM   43  O   UNK     0       0.000   0.000   0.000  0.00  0.00           O+0
HETATM   44  O   UNK     0       0.000   0.000   0.000  0.00  0.00           O+0
HETATM   45  O   UNK     0       0.000   0.000   0.000  0.00  0.00           O+0
HETATM   46  O   UNK     0       0.000   0.000   0.000  0.00  0.00           O+0
HETATM   47  O   UNK     0       0.000   0.000   0.000  0.00  0.00           O+0
HETATM   48  P   UNK     0       0.000   0.000   0.000  0.00  0.00           P+0
HETATM   49  P   UNK     0       0.000   0.000   0.000  0.00  0.00           P+0
HETATM   50  H   UNK     0       0.000   0.000   0.000  0.00  0.00           H+0
HETATM   51  H   UNK     0       0.000   0.000   0.000  0.00  0.00           H+0
HETATM   52  H   UNK     0       0.000   0.000   0.000  0.00  0.00           H+0
HETATM   53  H   UNK     0       0.000   0.000   0.000  0.00  0.00           H+0
CONECT    1   33                                                            
CONECT    2   33                                                            
CONECT    3   34                                                            
CONECT    4   34                                                            
CONECT    5   35                                                            
CONECT    6   35                                                            
CONECT    7   36                                                            
CONECT    8   36                                                            
CONECT    9   37                                                            
CONECT   10   38                                                            
CONECT   11   39                                                            
CONECT   12   40                                                            
CONECT   13   17   21                                                       
CONECT   14   18   22                                                       
CONECT   15   19   23                                                       
CONECT   16   20   24                                                       
CONECT   17   13   33                                                       
CONECT   18   14   34                                                       
CONECT   19   15   35                                                       
CONECT   20   16   36                                                       
CONECT   21   13   37                                                       
CONECT   22   14   38                                                       
CONECT   23   15   39                                                       
CONECT   24   16   40                                                       
CONECT   25   29   37   50                                                  
CONECT   26   30   38   51                                                  
CONECT   27   31   39   52                                                  
CONECT   28   32   40   53                                                  
CONECT   29   25   43                                                       
CONECT   30   26   44                                                       
CONECT   31   27   45                                                       
CONECT   32   28   46                                                       
CONECT   33    1    2   17                                                  
CONECT   34    3    4   18                                                  
CONECT   35    5    6   19                                                  
CONECT   36    7    8   20                                                  
CONECT   37    9   21   25                                                  
CONECT   38   10   22   26                                                  
CONECT   39   11   23   27                                                  
CONECT   40   12   24   28                                                  
CONECT   41   48                                                            
CONECT   42   49                                                            
CONECT   43   29   48                                                       
CONECT   44   30   48                                                       
CONECT   45   31   49                                                       
CONECT   46   32   49                                                       
CONECT   47   48   49                                                       
CONECT   48   41   43   44   47                                             
CONECT   49   42   45   46   47                                             
CONECT   50   25                                                            
CONECT   51   26                                                            
CONECT   52   27                                                            
CONECT   53   28                                                            
MASTER        0    0    0    0    0    0    0    0   53    0  104    0
END

Synonyms

Value	Source
Geranyl diphosphoric acid	Generator

Molecular Formula

C₄₀H₆₈O₇P₂

Average Mass

722.9112

Monoisotopic Mass

722.444027554

IUPAC Name

bis(2E)-3,7-dimethylocta-2,6-dien-1-yl {[bis({[(2E)-3,7-dimethylocta-2,6-dien-1-yl]oxy})phosphoryl]oxy}phosphonate

Traditional Name

bis(2E)-3,7-dimethylocta-2,6-dien-1-yl {bis[(2E)-3,7-dimethylocta-2,6-dien-1-yl]oxyphosphoryl}oxyphosphonate

CAS Registry Number

763-10-0

SMILES

[H]\C(COP(=O)(OC\C([H])=C(/C)CCC=C(C)C)OP(=O)(OC\C([H])=C(/C)CCC=C(C)C)OC\C([H])=C(/C)CCC=C(C)C)=C(\C)CCC=C(C)C

InChI Identifier

InChI=1S/C40H68O7P2/c1-33(2)17-13-21-37(9)25-29-43-48(41,44-30-26-38(10)22-14-18-34(3)4)47-49(42,45-31-27-39(11)23-15-19-35(5)6)46-32-28-40(12)24-16-20-36(7)8/h17-20,25-28H,13-16,21-24,29-32H2,1-12H3/b37-25+,38-26+,39-27+,40-28+

InChI Key

CNCHONBZLLTYBW-NISPWTRESA-N

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as isoprenoid phosphates. These are prenol lipids containing a phosphate group linked to an isoprene (2-methylbuta-1,3-diene) unit.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Prenol lipids

Sub Class

Isoprenoid phosphates

Direct Parent

Isoprenoid phosphates

Alternative Parents

Substituents

Organic pyrophosphate
Monoterpenoid
Isoprenoid phosphate
Acyclic monoterpenoid
Dialkyl phosphate
Alkyl phosphate
Phosphoric acid ester
Organic phosphoric acid derivative
Organic oxygen compound
Organic oxide
Hydrocarbon derivative
Organooxygen compound
Aliphatic acyclic compound

Molecular Framework

Aliphatic acyclic compounds

External Descriptors

Not Available

Functional Ontology

Not Available

Physical Properties

State

Solid

Predicted Properties

Property	Value	Source
Water Solubility	0.0005 g/L	ALOGPS
logP	6.97	ALOGPS
logP	12.15	ChemAxon
logS	-6.2	ALOGPS
pKa (Strongest Basic)	-9.1	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	2	ChemAxon
Hydrogen Donor Count	0	ChemAxon
Polar Surface Area	80.29 Å²	ChemAxon
Rotatable Bond Count	26	ChemAxon
Refractivity	215.14 m³·mol⁻¹	ChemAxon
Polarizability	85.36 Å³	ChemAxon
Number of Rings	0	ChemAxon
Bioavailability	No	ChemAxon
Rule of Five	No	ChemAxon
Ghose Filter	No	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	No	ChemAxon

Spectra

Spectrum Type	Description	Splash Key	Deposition Date	View
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Positive	splash10-0079-0901012500-d1b7aa18c9b2d51ff0c2	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Positive	splash10-000i-3901010000-a9b86de7dae021885b86	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Positive	splash10-0ldr-9700002000-17516a4fadeccb729bab	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Negative	splash10-00di-0000040900-3880e297b06dcbb047b3	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Negative	splash10-008i-0300960100-a0493861d38f5bf740dc	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Negative	splash10-001i-0082910000-4f9a62a28157471f4c2b	2015-09-15	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 100 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 1000 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 200 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 300 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 400 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 500 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 600 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 700 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 800 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 900 MHz, H₂O, predicted)		2022-08-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, H₂O, predicted)		2022-08-20	View Spectrum

Biological Properties

Cellular Locations

Not Available

Biospecimen Locations

Not Available

Tissue Locations

Not Available

Associated OMIM IDs

114500 (Colorectal cancer)
610247 (Eosinophilic esophagitis)

Human Proteins and Enzymes

Protein ID	Protein Name	Protein Type	Uniprot ID	Species

Human Pathways

Pathways

Name	SMPDB/PathBank

Metabolic Reactions

Reaction ID	Precursor	Product	Enzyme	Reaction Type	Data Source	Reference
MMDBr0013465	Geranyl diphosphate	(R)-linalool	R-linalool synthase	Synthesis	RHEA	34755880
MMDBr0013593	Geranyl diphosphate	Myrcene	Bifunctional terpene synthase Agr4	Synthesis	RHEA	34755880
MMDBr0013594	Geranyl diphosphate	Myrcene	Bifunctional terpene synthase Agr4	Synthesis	RHEA	34755880
MMDBr0013654	Geranyl diphosphate	3-linalylflaviolin	Flaviolin linalyltransferase	Linalyltransferase	RHEA	34755880
MMDBr0013859	Geranyl diphosphate	Farnesyl pyrophosphate	Geranylgeranyl pyrophosphate synthase atmG	Synthesis; Reverse C-prenylation of phenalenone; Transfer of a prenyl group	RHEA	34755880
MMDBr0013860	Geranyl diphosphate	Farnesyl pyrophosphate	Geranylgeranyl pyrophosphate synthase	Synthesis	RHEA	34755880
MMDBr0014204	Dimethylallylpyrophosphate	Geranyl diphosphate	Geranylgeranyl pyrophosphate synthase atmG	Transfer of a dimethylallyl group	RHEA	34755880
MMDBr0014205	Dimethylallylpyrophosphate	Geranyl diphosphate	Geranylgeranyl pyrophosphate synthase	Transfer of a dimethylallyl group	RHEA	34755880
MMDBr0014317	Geranyl diphosphate	(2Z,6E)-farnesyl diphosphate	Short-chain Z-isoprenyl diphosphate synthase	Synthesis	RHEA	34755880
MMDBr0014699	Geranyl diphosphate	all-trans-nonaprenyl diphosphate	All-trans-nonaprenyl-diphosphate synthase (geranyl-diphosphate specific)	Synthesis	RHEA	34755880
MMDBr0015154	Geranyl diphosphate	(E)-2-methylgeranyl diphosphate	Geranyl diphosphate 2-C-methyltransferase	Methylation	RHEA	34755880
MMDBr0015159	Geranyl diphosphate	Eucalyptol	1,8-cineole synthase	Synthesis	RHEA	34755880
MMDBr0015271	Geranyl diphosphate	7-O-geranyl-2-O,3-dimethylflaviolin	Furaquinocin biosynthesis prenyltransferase	Synthesis	RHEA	34755880
MMDBr0015771	Geranyl diphosphate	6-linalyl-2-O,3-dimethylflaviolin	Furaquinocin biosynthesis prenyltransferase	Synthesis	RHEA	34755880
MMDBr0024469	Geranyl diphosphate	diphosphate	tRNA 2-selenouridine synthase	Synthesis	RHEA	34755880
MMDBr0024470	Geranyl diphosphate	diphosphate	tRNA 2-selenouridine synthase	Synthesis	RHEA	34755880
MMDBr0025073	Water	diphosphate	tRNA 2-selenouridine synthase	Synthesis	RHEA	34755880
MMDBr0025074	Water	diphosphate	tRNA 2-selenouridine synthase	Synthesis	RHEA	34755880
MMDBr0025690	L-Tryptophan	diphosphate	Not Available		RHEA	34755880
MMDBr0025691	L-Tryptophan	diphosphate	Not Available		RHEA	34755880

Health Effects and Bioactivity

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

Microbial Sources

Superkingdom/Kingdom	Phylum	Total species	Hosts and Body Sites	Microbial Links
Bacteria	Proteobacteria	7	Human ; Human feces; Human feces; pleural fluid plaque; bal; Human stool	Unknown
Bacteria	Actinobacteria	14	Cattle ; Human
Eukaryota/Fungi	Basidiomycota	5
Eukaryota/Fungi	Ascomycota	32	Human feces; Human saliva	Unknown
Bacteria	Cyanobacteria	1
Archaea/Archaea	Euryarchaeota	1
Eukaryota/Fungi	Mucoromycota	1
Bacteria	Aquificae	1
Bacteria	Firmicutes	2	Human feces
Viruses/Bamfordvirae	Nucleocytoviricota	5

Exposure Sources

Source Type	Source Sub-type	Species	Data Source	Reference

Host Biospecimen and Location

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

External Links

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FooDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

Not Available

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Geranyl pyrophosphate

METLIN ID

Not Available

PubChem Compound

21145287

PDB ID

Not Available

ChEBI ID

Not Available

Food Biomarker Ontology

Not Available

References

Synthesis Reference

Not Available

General References

Bansal P, Morgat A, Axelsen KB, Muthukrishnan V, Coudert E, Aimo L, Hyka-Nouspikel N, Gasteiger E, Kerhornou A, Neto TB, Pozzato M, Blatter MC, Ignatchenko A, Redaschi N, Bridge A: Rhea, the reaction knowledgebase in 2022. Nucleic Acids Res. 2022 Jan 7;50(D1):D693-D700. doi: 10.1093/nar/gkab1016. [PubMed:34755880 ]

Showing metabocard for Geranyl diphosphate (MMDBc0031147)

MOL for #<Metabolite:0x00007f5a88031490>

3D MOL for #<Metabolite:0x00007f5a88031490>

3D SDF for #<Metabolite:0x00007f5a88031490>

3D-SDF for #<Metabolite:0x00007f5a88031490>

PDB for #<Metabolite:0x00007f5a88031490>

3D PDB for #<Metabolite:0x00007f5a88031490>

SMILES for #<Metabolite:0x00007f5a88031490>

INCHI for #<Metabolite:0x00007f5a88031490>

Structure for #<Metabolite:0x00007f5a88031490>

3D Structure for #<Metabolite:0x00007f5a88031490>