MiMeDB: Showing metabocard for 12-hydroxydehydrobotrydienol (MMDBc0017784)

Record Information

Version

1.0

Status

Detected and Quantified

Creation Date

2021-05-15 08:05:39 UTC

Update Date

2022-08-31 06:42:55 UTC

Metabolite ID

MMDBc0017784

Metabolite Identification

Common Name

12-hydroxydehydrobotrydienol

Description

12-hydroxydehydrobotrydienol belongs to the class of organic compounds known as indanes. Indanes are compounds containing an indane moiety, which consists of a cyclopentane fused to a benzene ring. Based on a literature review very few articles have been published on 12-hydroxydehydrobotrydienol.

Structure

MOL SDF PDB SMILES InChI

12-hydroxydehydrobotrydienol
  Mrv1652309242002262D          

 18 19  0  0  0  0            999 V2000
    1.6500    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8250    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4125   -0.7144    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4125   -0.7144    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8250    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4125    0.7144    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4125    0.7144    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6320   -0.1715    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.7182   -0.9920    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9645   -1.3276    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.3770   -2.0420    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2971   -1.8125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3833   -2.6330    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7182    0.6489    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4570   -0.1715    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8695    0.5430    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.8250   -1.4290    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6500   -1.4290    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
  2  3  2  0  0  0  0
  3  4  1  0  0  0  0
  4  5  2  0  0  0  0
  5  6  1  0  0  0  0
  6  7  2  0  0  0  0
  5  8  1  0  0  0  0
  8  9  1  0  0  0  0
  9 10  1  0  0  0  0
 10 11  1  6  0  0  0
 10 12  1  0  0  0  0
 12 13  1  0  0  0  0
  8 14  1  6  0  0  0
  8 15  1  0  0  0  0
 15 16  1  0  0  0  0
  3 17  1  0  0  0  0
 17 18  1  0  0  0  0
  7  2  1  0  0  0  0
 10  4  1  0  0  0  0
M  END
> <DATABASE_ID>
MMDBc0017784

> <DATABASE_NAME>
MIME

> <SMILES>
CC1=C(CO)C2=C(C=C1)[C@](C)(CO)C[C@]2(C)CO

> <INCHI_IDENTIFIER>
InChI=1S/C15H22O3/c1-10-4-5-12-13(11(10)6-16)15(3,9-18)7-14(12,2)8-17/h4-5,16-18H,6-9H2,1-3H3/t14-,15+/m0/s1

> <INCHI_KEY>
YPJRKTIWVUVMDI-LSDHHAIUSA-N

> <FORMULA>
C15H22O3

> <MOLECULAR_WEIGHT>
250.338

> <EXACT_MASS>
250.156894568

> <JCHEM_ACCEPTOR_COUNT>
3

> <JCHEM_ATOM_COUNT>
40

> <JCHEM_AVERAGE_POLARIZABILITY>
28.316167430615288

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
[(1R,3S)-3,4-bis(hydroxymethyl)-1,3,5-trimethyl-2,3-dihydro-1H-inden-1-yl]methanol

> <ALOGPS_LOGP>
1.43

> <JCHEM_LOGP>
1.3395930983333328

> <ALOGPS_LOGS>
-2.55

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
15.017752719995265

> <JCHEM_PKA_STRONGEST_ACIDIC>
14.53055161712824

> <JCHEM_PKA_STRONGEST_BASIC>
-2.7859649795291404

> <JCHEM_POLAR_SURFACE_AREA>
60.69

> <JCHEM_REFRACTIVITY>
72.3931

> <JCHEM_ROTATABLE_BOND_COUNT>
3

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
7.01e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
[(1R,3S)-3,4-bis(hydroxymethyl)-1,3,5-trimethyl-2H-inden-1-yl]methanol

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 24-SEP-20   NONE
TITLE     NULL                                                        
COMPND    MOLECULE: 12-hydroxydehydrobotrydienol                      
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   24-SEP-20         0                                  
HETATM    1  C   UNK     0       3.080   0.000   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       1.540   0.000   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       0.770  -1.334   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      -0.770  -1.334   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      -1.540   0.000   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      -0.770   1.334   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       0.770   1.334   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      -3.046  -0.320   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0      -3.207  -1.852   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0      -1.800  -2.478   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0      -2.570  -3.812   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0      -0.555  -3.383   0.000  0.00  0.00           C+0
HETATM   13  O   UNK     0      -0.716  -4.915   0.000  0.00  0.00           O+0
HETATM   14  C   UNK     0      -3.207   1.211   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0      -4.586  -0.320   0.000  0.00  0.00           C+0
HETATM   16  O   UNK     0      -5.356   1.014   0.000  0.00  0.00           O+0
HETATM   17  C   UNK     0       1.540  -2.667   0.000  0.00  0.00           C+0
HETATM   18  O   UNK     0       3.080  -2.667   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3    7                                                  
CONECT    3    2    4   17                                                  
CONECT    4    3    5   10                                                  
CONECT    5    4    6    8                                                  
CONECT    6    5    7                                                       
CONECT    7    6    2                                                       
CONECT    8    5    9   14   15                                             
CONECT    9    8   10                                                       
CONECT   10    9   11   12    4                                             
CONECT   11   10                                                            
CONECT   12   10   13                                                       
CONECT   13   12                                                            
CONECT   14    8                                                            
CONECT   15    8   16                                                       
CONECT   16   15                                                            
CONECT   17    3   18                                                       
CONECT   18   17                                                            
MASTER        0    0    0    0    0    0    0    0   18    0   38    0
END

Synonyms

Not Available

Molecular Formula

C₁₅H₂₂O₃

Average Mass

250.338

Monoisotopic Mass

250.156894568

IUPAC Name

[(1R,3S)-3,4-bis(hydroxymethyl)-1,3,5-trimethyl-2,3-dihydro-1H-inden-1-yl]methanol

Traditional Name

[(1R,3S)-3,4-bis(hydroxymethyl)-1,3,5-trimethyl-2H-inden-1-yl]methanol

CAS Registry Number

Not Available

SMILES

CC1=C(CO)C2=C(C=C1)[C@](C)(CO)C[C@]2(C)CO

InChI Identifier

InChI=1S/C15H22O3/c1-10-4-5-12-13(11(10)6-16)15(3,9-18)7-14(12,2)8-17/h4-5,16-18H,6-9H2,1-3H3/t14-,15+/m0/s1

InChI Key

YPJRKTIWVUVMDI-LSDHHAIUSA-N

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as indanes. Indanes are compounds containing an indane moiety, which consists of a cyclopentane fused to a benzene ring.

Kingdom

Organic compounds

Super Class

Benzenoids

Class

Indanes

Sub Class

Not Available

Direct Parent

Indanes

Alternative Parents

Substituents

Indane
Organic oxygen compound
Hydrocarbon derivative
Aromatic alcohol
Primary alcohol
Organooxygen compound
Alcohol
Aromatic homopolycyclic compound

Molecular Framework

Aromatic homopolycyclic compounds

External Descriptors

Not Available

Functional Ontology

Not Available

Physical Properties

State

Expected Solid

Predicted Properties

Property	Value	Source
Water Solubility	0.7 g/L	ALOGPS
logP	1.43	ALOGPS
logP	1.34	ChemAxon
logS	-2.6	ALOGPS
pKa (Strongest Acidic)	14.53	ChemAxon
pKa (Strongest Basic)	-2.8	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	3	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	60.69 Å²	ChemAxon
Rotatable Bond Count	3	ChemAxon
Refractivity	72.39 m³·mol⁻¹	ChemAxon
Polarizability	28.32 Å³	ChemAxon
Number of Rings	2	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

Reactions

Reaction ID	Precursor	Product	Enzyme	Reaction Type	Data Source	Reference

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	1	Human feces	Metabolic reconstruction

Exposure Sources

Other Exposures

Source Type	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

8786057

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

10610690

PDB ID

Not Available

ChEBI ID

Not Available

Food Biomarker Ontology

Not Available

References

Synthesis Reference

Not Available

General References

van Santen JA, Poynton EF, Iskakova D, McMann E, Alsup TA, Clark TN, Fergusson CH, Fewer DP, Hughes AH, McCadden CA, Parra J, Soldatou S, Rudolf JD, Janssen EM, Duncan KR, Linington RG: The Natural Products Atlas 2.0: a database of microbially-derived natural products. Nucleic Acids Res. 2022 Jan 7;50(D1):D1317-D1323. doi: 10.1093/nar/gkab941. [PubMed:34718710 ]

Showing metabocard for 12-hydroxydehydrobotrydienol (MMDBc0017784)

MOL for #<Metabolite:0x00005645c8fa2238>

3D MOL for #<Metabolite:0x00005645c8fa2238>

3D SDF for #<Metabolite:0x00005645c8fa2238>

3D-SDF for #<Metabolite:0x00005645c8fa2238>

PDB for #<Metabolite:0x00005645c8fa2238>

3D PDB for #<Metabolite:0x00005645c8fa2238>

SMILES for #<Metabolite:0x00005645c8fa2238>

INCHI for #<Metabolite:0x00005645c8fa2238>

Structure for #<Metabolite:0x00005645c8fa2238>

3D Structure for #<Metabolite:0x00005645c8fa2238>