Pregnenolone

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3β-Hydroxypregn-5-en-20-one

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Pregnenolone

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Pregnenolone

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Pregnenolone (medication)

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SMILES:CC(=O)C1CCC2C3CC=C4CC(O)CCC4(C)C3CCC12C

InChI:InChI=1S/C21H32O2/c1-13(22)17-6-7-18-16-5-4-14-12-15(23)8-10-20(14,2)19(16)9-11-21(17,18)3/h4,15-19,23H,5-12H2,1-3H3

InChI key:ORNBQBCIOKFOEO-UHFFFAOYSA-N

Synonyms: 1-[(3S,8S,9S,10R,13S,14S,17S)-3-Hydroxy-10,13-dimethyl-2,3,4,7,8,9,10,11,12,13,14,15,16,17-tetradecahydro-1H-cyclopenta[a]phenanthren-17-yl]ethan-1-one,Pregnenolone (schizophrenia), Neurosteroid (schizophrenia), Neuroscience,3β-Hydroxypregn-5-en-20-one, Pregnenolone (schizophrenia), Neuroscience,(3β)-3-Hydroxypregn-5-en-20-one
Categories (non-exhaustive):

Similarities

Being able to identify molecules that are similar to the one we study can allow to infer some of its properties. There are several ways of measuring the similarity between molecules, by their structure, effects, pharmacological interactions etc. In the following, you can find similar molecules according to various criterions and tools that we developed. To understand the limitations of these comparisons, it is crucial to always refer to the methodology that was used to measure those similarities. Please note: This information is provided solely for informational purposes and should not be interpreted as medical advice.

To measure structural similarity, we use the Mol2vec method, which is a neural network that processes molecules and transform them into points in spaces, such that molecules with chemically related substructures are transformed into points that are close in space.

Molecule properties

Using the KGPT Deep Learning model, we predict several property of the molecule. Predictions are grouped by the dataset that was used to get those prediction. Along with each prediction, we provide a plot that shows the distribution of predicted values on the train/test/val dataset. This gives an estimate of the reliability of the model.

Description: A dataset focused on predicting the inhibitory effects of molecules on the enzyme beta-secretase 1 (BACE1). BACE1 inhibition is a potential target for Alzheimer's disease treatment.
Class
TrainValTest
2.88-3.70-1.36
Description: A dataset providing insights on the ability of molecules to penetrate the blood-brain barrier. Crucial for understanding the potential of molecules as central nervous system drugs.
p_np
TrainValTest
-2.24-3.290.40
Description: This dataset deals with the FDA approval status and clinical trial toxicity of molecules. Important for understanding the safety and regulatory status of compounds.
CT_TOX
TrainValTest
-0.49-0.78-0.91
FDA_APPROVED
TrainValTest
0.53-1.27-0.50
Description: A dataset that predicts the solubility of molecules in water. Solubility is an essential property influencing bioavailability and the potential formulation of a drug.
logSolubilitylog(mol/L)
-1.36
TrainValTest
Description: This dataset is centered on predicting the free energy when a molecule is dissolved in water. The energy changes can affect molecular interactions in biological systems.
freesolvkcal/mol
-0.77
TrainValTest
Description: A dataset predicting the lipophilicity of molecules. Lipophilicity is a crucial factor affecting the distribution, metabolism, and excretion of drugs in the body.
lipoAlogP
1.52
TrainValTest
Description: This dataset gives insights into the metabolic stability of molecules. High metabolic stability often results in a longer half-life, influencing drug dosage and frequency.
low
TrainValTest
-0.17-3.50-2.88
high
TrainValTest
0.72-3.55-0.49
27 entries
12 entries
617 entries

Advanced insights

In the following we provide more advanced analysis about the interactions of a molecule with the human metabolism, docking sites etc.

Affinities

Binding affinities with a list of 61 predefined docking sites. Those affinities are used to compute the interactions similarities.

AF-A5X5Y0
AF-O95264
AF-P08588
AF-P08908
AF-P13945
AF-P18089
AF-P21728
AF-P21918
AF-P25100
AF-P28221
AF-P28566
AF-P46098
AF-Q9Y2T6
P08913_6KUX
P14416_6CM4
P18825_6KUW
P21917_5WIU
P28222_4IAR
P28223_6WGT
P28335_6BQH
P35462_3PBL
P41595_4IB4

Interaction of this molecule with metabolism

We use a Deep Learning model to predict the interactions of this molecule with metabolism. Refer to the source to understand the methodology.

Reactions that metabolize this molecule
Dehydrogenation from CyProduct BTMR1338
Enzymes: 3 beta-hydroxysteroid dehydrogenase/Delta 5-->4-isomerase type 1
Reagents
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Progesterone

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Progesterone

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Progesterone

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Progesterone (medication)

Hydroxylation from CyProduct BTMR1328
Enzymes: Steroid 21-hydroxylase
Reagents

Metabolite: InChI=1S/C21H32...

Hydroxylation from CyProduct BTMR1328
Enzymes: Steroid 17-alpha-hydroxylase/17,20 lyase
Reagents
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17alpha-hydroxypregnenolone

Hydroxylation from CyProduct BTMR1328
Enzymes: 25-hydroxycholesterol 7-alpha-hydroxylase
Reagents

Metabolite: InChI=1S/C21H32...

Dehydrogenation of secondary alcohol BTMR0030
Enzymes: 1.1.1.1
Reagents

Metabolite: InChI=1S/C21H30...

Dehydrogenation of 3-beta-hydroxy-delta-5-steroid BTMR0363
Enzymes: 1.1.1.145
Reagents

Metabolite: InChI=1S/C21H31...

21-Hydroxylation of sterol BTMR0396
Enzymes: 1.14.14.16
Reagents

Metabolite: InChI=1S/C21H32...

17-alpha-hydroxylation of sterol BTMR0390
Enzymes: 1.14.14.19
Reagents

Metabolite: InChI=1S/C21H32...

Cleavage of C-17-acyl-sterol BTMR0392
Enzymes: 1.14.14.19
Reagents
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Acetic Acid

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Acetic Acid, Glacial

Cleavage of C-17-acyl-sterol BTMR0392
Enzymes: 1.14.14.19
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Prasterone

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Prasterone

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Dehydroepiandrosterone

Cleavage of C-17-acyl-sterol BTMR0394
Enzymes: 1.14.14.19
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Metabolite: InChI=1S/C2H4O2...

Cleavage of C-17-acyl-sterol BTMR0394
Enzymes: 1.14.14.19
Reagents

Metabolite: InChI=1S/C19H28...

Cleavage of C-17-acyl-sterol BTMR0395
Enzymes: 1.14.14.19
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Metabolite: InChI=1S/C2H4O2...

Cleavage of C-17-acyl-sterol BTMR0395
Enzymes: 1.14.14.19
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HE2100

7-Hydroxylation of sterol BTMR0404
Reagents

Metabolite: InChI=1S/C21H32...

11-beta-Hydroxylation of sterol BTMR0406
Enzymes: 1.14.15.4
Reagents

Metabolite: InChI=1S/C21H32...

3-OH-Glucuronidation of sterol BTMR0157
Enzymes: 2.4.1.17
Reagents

Metabolite: InChI=1S/C27H40...

3-beta-Glycosylation of sterol BTMR0186
Enzymes: 2.4.1.173
Reagents

Metabolite: InChI=1S/C27H42...

3-OH-Sulfation of sterol BTMR0503
Enzymes: 2.8.2.2
Reagents
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Pregnenolone sulfate

16-Hydroxylation of sterol BTMR0407
Reagents

Metabolite: InChI=1S/C21H32...

2-Hydroxylation of sterol BTMR0398
Reagents

Metabolite: InChI=1S/C21H32...

4-Hydroxylation of sterol BTMR0400
Enzymes: CYP1A2 CYP3A4
Reagents

Metabolite: InChI=1S/C21H32...

Hydroxylation of methyl carbon adjacent to aliphatic ring BTMR0054
Reagents

Metabolite: InChI=1S/C21H32...

Hydroxylation of methyl carbon adjacent to aliphatic ring BTMR0054
Reagents

Metabolite: InChI=1S/C21H32...

Reduction of ketone to alcohol BTMR1171
Enzymes: CYP2C9
Reagents

Metabolite: InChI=1S/C21H34...

Dehydrogenation from CyProduct BTMR1338
Enzymes: 3 beta-hydroxysteroid dehydrogenase/Delta 5-->4-isomerase type 1
Reagents

Metabolite: InChI=1S/C21H30...

Hydroxylation from CyProduct BTMR1328
Enzymes: Steroid 21-hydroxylase
Reagents

Metabolite: InChI=1S/C21H32...

Hydroxylation from CyProduct BTMR1328
Enzymes: Steroid 17-alpha-hydroxylase/17,20 lyase
Reagents

Metabolite: InChI=1S/C21H32...

Hydroxylation from CyProduct BTMR1328
Enzymes: 25-hydroxycholesterol 7-alpha-hydroxylase
Reagents

Metabolite: InChI=1S/C21H32...

Reactions that metabolism produce from this molecule
O-Dealkylation of dialkylether BTMR1129
Products
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AEF0117

Oxygenation 1375
Enzymes: Cholesterol side-chain cleavage enzyme, mitochondrial
Products
pubchem

Oxygen

Oxygenation 1378
Enzymes: Cholesterol side-chain cleavage enzyme, mitochondrial
Products

Metabolite: InChI=1S/C27H46...

Oxygenation 1375
Enzymes: Cholesterol side-chain cleavage enzyme, mitochondrial
Products
pubchem

Cholesterol

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ANW-32821

Oxygenation 1378
Enzymes: Cholesterol side-chain cleavage enzyme, mitochondrial
Products

Metabolite: InChI=1S/C27H46...

Hydrolysis of carboxylic acid ester BTMR0143
Enzymes: 3.1.1.1
Products
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Pregnenolone succinate

O-Dealkylation of dialkylether BTMR1129
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3β-Methoxypregnenolone