MiMeDB: Showing metabocard for gibberellin A15 (MMDBc0053277)

Record Information

Version

1.0

Status

Detected and Quantified

Creation Date

2022-05-16 21:19:26 UTC

Update Date

2022-09-01 02:19:45 UTC

Metabolite ID

MMDBc0053277

Metabolite Identification

Common Name

gibberellin A15

Description

gibberellin A15 belongs to the class of organic compounds known as c20-gibberellin 6-carboxylic acids. These are c20-gibberellins with a carboxyl group at the 6-position. gibberellin A15 is an extremely weak basic (essentially neutral) compound (based on its pKa).

Structure

MOL SDF PDB SMILES InChI


  Mrv1652303082008102D          

 25 28  0  0  1  0            999 V2000
   -0.6002    1.7699    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2655    2.8921    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.3685    0.9357    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.9384   -0.0098    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.7922    0.0340    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.4296    1.7584    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.6255    0.5772    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8879    2.0566    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0987    1.1228    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8021    0.2286    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1893    1.5306    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4743    0.7163    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.1358    0.8324    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.2359    2.1841    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.0045    1.8641    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.0685    2.9919    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.3232    2.8137    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7476    2.2226    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.9435    1.0414    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.6465    1.5733    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.4353   -0.3001    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.2852    3.2508    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.6844    3.5408    0.0000 O   0  5  0  0  0  0  0  0  0  0  0  0
    4.0992    3.6077    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.1228    2.6107    0.0000 O   0  5  0  0  0  0  0  0  0  0  0  0
  5  4  1  0  0  0  0
  6  3  1  0  0  0  0
  7  3  1  0  0  0  0
 11  1  2  0  0  0  0
 11  8  1  0  0  0  0
 12  4  1  0  0  0  0
 12  9  1  6  0  0  0
 12 11  1  0  0  0  0
 13  5  1  6  0  0  0
 15 14  1  6  0  0  0
 14 16  1  1  0  0  0
 18  2  1  1  0  0  0
 18  6  1  0  0  0  0
 18 15  1  0  0  0  0
 18 17  1  6  0  0  0
 19  7  1  0  0  0  0
 19 10  1  6  0  0  0
 19 13  1  0  0  0  0
 19 15  1  0  0  0  0
 20  8  1  0  0  0  0
 20  9  1  6  0  0  0
 20 13  1  0  0  0  0
 20 14  1  0  0  0  0
 21 10  1  0  0  0  0
 22 16  2  0  0  0  0
 23 16  1  0  0  0  0
 24 17  2  0  0  0  0
 25 17  1  0  0  0  0
M  CHG  2  23  -1  25  -1
M  END


  Mrv1652303082008102D          

 25 28  0  0  1  0            999 V2000
   -0.6002    1.7699    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2655    2.8921    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.3685    0.9357    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.9384   -0.0098    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.7922    0.0340    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.4296    1.7584    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.6255    0.5772    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8879    2.0566    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0987    1.1228    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8021    0.2286    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1893    1.5306    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4743    0.7163    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.1358    0.8324    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.2359    2.1841    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.0045    1.8641    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.0685    2.9919    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.3232    2.8137    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7476    2.2226    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.9435    1.0414    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.6465    1.5733    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.4353   -0.3001    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.2852    3.2508    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.6844    3.5408    0.0000 O   0  5  0  0  0  0  0  0  0  0  0  0
    4.0992    3.6077    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.1228    2.6107    0.0000 O   0  5  0  0  0  0  0  0  0  0  0  0
  5  4  1  0  0  0  0
  6  3  1  0  0  0  0
  7  3  1  0  0  0  0
 11  1  2  0  0  0  0
 11  8  1  0  0  0  0
 12  4  1  0  0  0  0
 12  9  1  6  0  0  0
 12 11  1  0  0  0  0
 13  5  1  6  0  0  0
 15 14  1  6  0  0  0
 14 16  1  1  0  0  0
 18  2  1  1  0  0  0
 18  6  1  0  0  0  0
 18 15  1  0  0  0  0
 18 17  1  6  0  0  0
 19  7  1  0  0  0  0
 19 10  1  6  0  0  0
 19 13  1  0  0  0  0
 19 15  1  0  0  0  0
 20  8  1  0  0  0  0
 20  9  1  6  0  0  0
 20 13  1  0  0  0  0
 20 14  1  0  0  0  0
 21 10  1  0  0  0  0
 22 16  2  0  0  0  0
 23 16  1  0  0  0  0
 24 17  2  0  0  0  0
 25 17  1  0  0  0  0
M  CHG  2  23  -1  25  -1
M  END
> <DATABASE_ID>
MMDBc0053277

> <DATABASE_NAME>
MIME

> <SMILES>
C[C@]1(CCC[C@@]2(CO)[C@@H]3CC[C@@H]4C[C@]3(CC4=C)[C@H]([C@H]12)C([O-])=O)C([O-])=O

> <INCHI_IDENTIFIER>
InChI=1S/C20H28O5/c1-11-8-20-9-12(11)4-5-13(20)19(10-21)7-3-6-18(2,17(24)25)15(19)14(20)16(22)23/h12-15,21H,1,3-10H2,2H3,(H,22,23)(H,24,25)/p-2/t12-,13+,14-,15-,18-,19-,20+/m1/s1

> <INCHI_KEY>
TZGXVFYTKTWKCU-CXXOJBQZSA-L

> <FORMULA>
C20H26O5

> <MOLECULAR_WEIGHT>
346.424

> <EXACT_MASS>
346.179121097

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_ATOM_COUNT>
51

> <JCHEM_AVERAGE_POLARIZABILITY>
36.19872861776405

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
-2

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(1R,2S,3S,4R,8R,9R,12R)-8-(hydroxymethyl)-4-methyl-13-methylidenetetracyclo[10.2.1.0^{1,9}.0^{3,8}]pentadecane-2,4-dicarboxylate

> <ALOGPS_LOGP>
2.29

> <JCHEM_LOGP>
2.3052354560000006

> <ALOGPS_LOGS>
-3.37

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
4

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-2

> <JCHEM_PKA>
4.784898659908547

> <JCHEM_PKA_STRONGEST_ACIDIC>
4.111016037286202

> <JCHEM_PKA_STRONGEST_BASIC>
-0.8478961126277819

> <JCHEM_POLAR_SURFACE_AREA>
100.49000000000001

> <JCHEM_REFRACTIVITY>
112.45139999999996

> <JCHEM_ROTATABLE_BOND_COUNT>
3

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
1.63e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(1R,2S,3S,4R,8R,9R,12R)-8-(hydroxymethyl)-4-methyl-13-methylidenetetracyclo[10.2.1.0^{1,9}.0^{3,8}]pentadecane-2,4-dicarboxylate

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 08-MAR-20   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   08-MAR-20         0                                  
HETATM    1  C   UNK     0      -1.120   3.304   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       6.096   5.399   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       8.155   1.747   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       1.752  -0.018   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       3.345   0.063   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       8.269   3.282   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       6.768   1.077   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       1.657   3.839   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       2.051   2.096   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       5.231   0.427   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       0.353   2.857   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       0.885   1.337   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       3.987   1.554   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       4.174   4.077   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       5.608   3.480   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       3.861   5.585   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       8.070   5.252   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       6.996   4.149   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       5.495   1.944   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       3.073   2.937   0.000  0.00  0.00           C+0
HETATM   21  O   UNK     0       6.413  -0.560   0.000  0.00  0.00           O+0
HETATM   22  O   UNK     0       2.399   6.068   0.000  0.00  0.00           O+0
HETATM   23  O   UNK     0       5.011   6.609   0.000  0.00  0.00           O-1
HETATM   24  O   UNK     0       7.652   6.734   0.000  0.00  0.00           O+0
HETATM   25  O   UNK     0       9.563   4.873   0.000  0.00  0.00           O-1
CONECT    1   11                                                            
CONECT    2   18                                                            
CONECT    3    6    7                                                       
CONECT    4    5   12                                                       
CONECT    5    4   13                                                       
CONECT    6    3   18                                                       
CONECT    7    3   19                                                       
CONECT    8   11   20                                                       
CONECT    9   12   20                                                       
CONECT   10   19   21                                                       
CONECT   11    1    8   12                                                  
CONECT   12    4    9   11                                                  
CONECT   13    5   19   20                                                  
CONECT   14   15   16   20                                                  
CONECT   15   14   18   19                                                  
CONECT   16   14   22   23                                                  
CONECT   17   18   24   25                                                  
CONECT   18    2    6   15   17                                             
CONECT   19    7   10   13   15                                             
CONECT   20    8    9   13   14                                             
CONECT   21   10                                                            
CONECT   22   16                                                            
CONECT   23   16                                                            
CONECT   24   17                                                            
CONECT   25   17                                                            
MASTER        0    0    0    0    0    0    0    0   25    0   56    0
END

Synonyms

Not Available

Molecular Formula

C₂₀H₂₆O₅

Average Mass

346.424

Monoisotopic Mass

346.179121097

IUPAC Name

(1R,2S,3S,4R,8R,9R,12R)-8-(hydroxymethyl)-4-methyl-13-methylidenetetracyclo[10.2.1.0^{1,9}.0^{3,8}]pentadecane-2,4-dicarboxylate

Traditional Name

(1R,2S,3S,4R,8R,9R,12R)-8-(hydroxymethyl)-4-methyl-13-methylidenetetracyclo[10.2.1.0^{1,9}.0^{3,8}]pentadecane-2,4-dicarboxylate

CAS Registry Number

Not Available

SMILES

C[C@]1(CCC[C@@]2(CO)[C@@H]3CC[C@@H]4C[C@]3(CC4=C)[C@H]([C@H]12)C([O-])=O)C([O-])=O

InChI Identifier

InChI=1S/C20H28O5/c1-11-8-20-9-12(11)4-5-13(20)19(10-21)7-3-6-18(2,17(24)25)15(19)14(20)16(22)23/h12-15,21H,1,3-10H2,2H3,(H,22,23)(H,24,25)/p-2/t12-,13+,14-,15-,18-,19-,20+/m1/s1

InChI Key

TZGXVFYTKTWKCU-CXXOJBQZSA-L

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as c20-gibberellin 6-carboxylic acids. These are c20-gibberellins with a carboxyl group at the 6-position.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Prenol lipids

Sub Class

Diterpenoids

Direct Parent

C20-gibberellin 6-carboxylic acids

Alternative Parents

Substituents

Gibberellane-6-carboxylic acid
Dicarboxylic acid or derivatives
Carboxylic acid salt
Carboxylic acid
Carboxylic acid derivative
Organic oxygen compound
Organic oxide
Hydrocarbon derivative
Primary alcohol
Organooxygen compound
Carbonyl group
Alcohol
Organic anion
Aliphatic homopolycyclic compound

Molecular Framework

Aliphatic homopolycyclic compounds

External Descriptors

Not Available

Functional Ontology

Not Available

Physical Properties

State

Expected Solid

Predicted Properties

Property	Value	Source
Water Solubility	0.16 g/L	ALOGPS
logP	2.29	ALOGPS
logP	2.31	ChemAxon
logS	-3.4	ALOGPS
pKa (Strongest Acidic)	4.11	ChemAxon
pKa (Strongest Basic)	-0.85	ChemAxon
Physiological Charge	-2	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	100.49 Å²	ChemAxon
Rotatable Bond Count	3	ChemAxon
Refractivity	112.45 m³·mol⁻¹	ChemAxon
Polarizability	36.2 Å³	ChemAxon
Number of Rings	4	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	Yes	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	No	ChemAxon

Spectra

Not Available

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

Not Available

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
Eukaryota/Fungi	Ascomycota	5	Human feces

Exposure Sources

Source Type	Source Sub-type	Species	Data Source	Reference

Host Biospecimen and Location

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

External Links

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FooDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

Not Available

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

25245948

PDB ID

Not Available

ChEBI ID

143956

Food Biomarker Ontology

Not Available

References

Synthesis Reference

Not Available

General References

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

Showing metabocard for gibberellin A15 (MMDBc0053277)

MOL for #<Metabolite:0x00007fecb7052390>

3D MOL for #<Metabolite:0x00007fecb7052390>

3D SDF for #<Metabolite:0x00007fecb7052390>

3D-SDF for #<Metabolite:0x00007fecb7052390>

PDB for #<Metabolite:0x00007fecb7052390>

3D PDB for #<Metabolite:0x00007fecb7052390>

SMILES for #<Metabolite:0x00007fecb7052390>

INCHI for #<Metabolite:0x00007fecb7052390>

Structure for #<Metabolite:0x00007fecb7052390>

3D Structure for #<Metabolite:0x00007fecb7052390>