MiMeDB: Showing metabocard for Streptosetin A (MMDBc0015424)

Record Information

Version

2.0

Status

Detected and Quantified

Creation Date

2021-05-15 06:15:35 UTC

Update Date

2025-10-07 16:06:25 UTC

Metabolite ID

MMDBc0015424

Metabolite Identification

Common Name

Streptosetin A

Description

Streptosetin A is a novel secondary metabolite belonging to the class of polyketides, which are characterized by their complex structures and diverse biological activities. This compound was discovered through a bioassay-guided purification process from marine-derived actinomycetes, specifically identified using an HDAC-based yeast screening method (PMID:23167691 ). The identification of streptosetin A highlights the potential of marine microorganisms as a source of bioactive compounds, particularly in the context of cancer research, where histone deacetylase (HDAC) inhibitors are of significant interest. The unique chemical structure of streptosetin A may offer insights into its mechanism of action and therapeutic applications, warranting further investigation into its biological properties and potential utility in drug development. As research continues to explore the rich biodiversity of marine environments, compounds like streptosetin A could play a crucial role in the discovery of new therapeutic agents.

Structure

MOL SDF PDB SMILES InChI


  Mrv1652305152108152D          

 29 31  0  0  1  0            999 V2000
    5.0013    2.0625    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    0.8250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.3882    3.1070    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.2868    2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145    2.0625    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289    2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5724    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4316    4.9341    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5724    2.0625    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.1434    2.0625    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.8579    0.8250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4028    4.1096    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434    1.2375    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.6098    3.8822    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289    0.8250    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.3276    3.1070    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1484    4.5662    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8579    2.4750    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.6563    5.2163    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    2.8579    0.0000    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.0529    3.6017    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289    0.0000    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.5151    2.9637    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.3239    4.5950    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.5724    2.8875    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434    2.8875    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.8579    1.6500    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434    0.4125    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
  4  1  1  0  0  0  0
  6  5  1  0  0  0  0
  9  2  1  0  0  0  0
  9  5  2  0  0  0  0
 10  4  1  6  0  0  0
 10  7  1  0  0  0  0
 11  6  1  0  0  0  0
 12  7  1  0  0  0  0
 13  8  1  0  0  0  0
 14 11  1  0  0  0  0
 14 12  1  0  0  0  0
 15 13  1  0  0  0  0
 16  9  1  0  0  0  0
 16 14  1  0  0  0  0
 17 15  2  0  0  0  0
 18 15  1  0  0  0  0
 19  3  1  1  0  0  0
 19 10  1  0  0  0  0
 19 11  1  0  0  0  0
 19 17  1  6  0  0  0
 20  8  1  0  0  0  0
 20 18  2  0  0  0  0
 21 12  2  0  0  0  0
 22 13  2  0  0  0  0
 16 23  1  1  0  0  0
 17 24  1  4  0  0  0
 25 18  1  0  0  0  0
 10 26  1  1  0  0  0
 11 27  1  6  0  0  0
 14 28  1  1  0  0  0
 16 29  1  6  0  0  0
M  END


  Mrv1652305152108152D          

 29 31  0  0  1  0            999 V2000
    5.0013    2.0625    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    0.8250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.3882    3.1070    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.2868    2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145    2.0625    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289    2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5724    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4316    4.9341    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7145    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5724    2.0625    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.1434    2.0625    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.8579    0.8250    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4028    4.1096    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434    1.2375    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.6098    3.8822    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289    0.8250    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.3276    3.1070    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1484    4.5662    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8579    2.4750    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.6563    5.2163    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    2.8579    0.0000    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.0529    3.6017    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.4289    0.0000    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.5151    2.9637    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.3239    4.5950    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.5724    2.8875    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434    2.8875    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.8579    1.6500    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1434    0.4125    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
  4  1  1  0  0  0  0
  6  5  1  0  0  0  0
  9  2  1  0  0  0  0
  9  5  2  0  0  0  0
 10  4  1  6  0  0  0
 10  7  1  0  0  0  0
 11  6  1  0  0  0  0
 12  7  1  0  0  0  0
 13  8  1  0  0  0  0
 14 11  1  0  0  0  0
 14 12  1  0  0  0  0
 15 13  1  0  0  0  0
 16  9  1  0  0  0  0
 16 14  1  0  0  0  0
 17 15  2  0  0  0  0
 18 15  1  0  0  0  0
 19  3  1  1  0  0  0
 19 10  1  0  0  0  0
 19 11  1  0  0  0  0
 19 17  1  6  0  0  0
 20  8  1  0  0  0  0
 20 18  2  0  0  0  0
 21 12  2  0  0  0  0
 22 13  2  0  0  0  0
 16 23  1  1  0  0  0
 17 24  1  4  0  0  0
 25 18  1  0  0  0  0
 10 26  1  1  0  0  0
 11 27  1  6  0  0  0
 14 28  1  1  0  0  0
 16 29  1  6  0  0  0
M  END
> <DATABASE_ID>
MMDBc0015424

> <DATABASE_NAME>
MIME

> <SMILES>
[H][C@@]1(CC)CC(=O)[C@]2([H])[C@@]([H])(O)C(C)=CC[C@@]2([H])[C@]1(C)C(O)=C1C(=O)CN=C1O

> <INCHI_IDENTIFIER>
InChI=1S/C19H25NO5/c1-4-10-7-12(21)14-11(6-5-9(2)16(14)23)19(10,3)17(24)15-13(22)8-20-18(15)25/h5,10-11,14,16,23-24H,4,6-8H2,1-3H3,(H,20,25)/t10-,11-,14-,16+,19-/m1/s1

> <INCHI_KEY>
VHGTVBAZDFWWOL-XHKYUUOZSA-N

> <FORMULA>
C19H25NO5

> <MOLECULAR_WEIGHT>
347.411

> <EXACT_MASS>
347.173272909

> <JCHEM_ACCEPTOR_COUNT>
6

> <JCHEM_ATOM_COUNT>
50

> <JCHEM_AVERAGE_POLARIZABILITY>
36.43151826016257

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
4-{[(1R,2R,4aS,5R,8aR)-2-ethyl-5-hydroxy-1,6-dimethyl-4-oxo-1,2,3,4,4a,5,8,8a-octahydronaphthalen-1-yl](hydroxy)methylidene}-5-hydroxy-3,4-dihydro-2H-pyrrol-3-one

> <ALOGPS_LOGP>
1.33

> <JCHEM_LOGP>
1.6192084206666675

> <ALOGPS_LOGS>
-2.56

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-1

> <JCHEM_PKA>
9.423430985137283

> <JCHEM_PKA_STRONGEST_ACIDIC>
4.156039729340042

> <JCHEM_PKA_STRONGEST_BASIC>
1.482415468003944

> <JCHEM_POLAR_SURFACE_AREA>
107.19000000000001

> <JCHEM_REFRACTIVITY>
93.86359999999999

> <JCHEM_ROTATABLE_BOND_COUNT>
2

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
9.58e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
4-{[(1R,2R,4aS,5R,8aR)-2-ethyl-5-hydroxy-1,6-dimethyl-4-oxo-2,3,4a,5,8,8a-hexahydronaphthalen-1-yl](hydroxy)methylidene}-5-hydroxy-2H-pyrrol-3-one

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 15-MAY-21   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   15-MAY-21         0                                  
HETATM    1  C   UNK     0       9.336   3.850   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       0.000   1.540   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       6.325   5.800   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       8.002   4.620   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       1.334   3.850   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       2.667   4.620   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       6.668   2.310   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       6.406   9.210   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       1.334   2.310   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       6.668   3.850   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       4.001   3.850   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       5.335   1.540   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       6.352   7.671   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       4.001   2.310   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       4.872   7.247   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       2.667   1.540   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       4.345   5.800   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       4.010   8.524   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       5.335   4.620   0.000  0.00  0.00           C+0
HETATM   20  N   UNK     0       4.958   9.737   0.000  0.00  0.00           N+0
HETATM   21  O   UNK     0       5.335   0.000   0.000  0.00  0.00           O+0
HETATM   22  O   UNK     0       7.565   6.723   0.000  0.00  0.00           O+0
HETATM   23  O   UNK     0       2.667   0.000   0.000  0.00  0.00           O+0
HETATM   24  O   UNK     0       2.828   5.532   0.000  0.00  0.00           O+0
HETATM   25  O   UNK     0       2.471   8.577   0.000  0.00  0.00           O+0
HETATM   26  H   UNK     0       6.668   5.390   0.000  0.00  0.00           H+0
HETATM   27  H   UNK     0       4.001   5.390   0.000  0.00  0.00           H+0
HETATM   28  H   UNK     0       5.335   3.080   0.000  0.00  0.00           H+0
HETATM   29  H   UNK     0       4.001   0.770   0.000  0.00  0.00           H+0
CONECT    1    4                                                            
CONECT    2    9                                                            
CONECT    3   19                                                            
CONECT    4    1   10                                                       
CONECT    5    6    9                                                       
CONECT    6    5   11                                                       
CONECT    7   10   12                                                       
CONECT    8   13   20                                                       
CONECT    9    2    5   16                                                  
CONECT   10    4    7   19   26                                             
CONECT   11    6   14   19   27                                             
CONECT   12    7   14   21                                                  
CONECT   13    8   15   22                                                  
CONECT   14   11   12   16   28                                             
CONECT   15   13   17   18                                                  
CONECT   16    9   14   23   29                                             
CONECT   17   15   19   24                                                  
CONECT   18   15   20   25                                                  
CONECT   19    3   10   11   17                                             
CONECT   20    8   18                                                       
CONECT   21   12                                                            
CONECT   22   13                                                            
CONECT   23   16                                                            
CONECT   24   17                                                            
CONECT   25   18                                                            
CONECT   26   10                                                            
CONECT   27   11                                                            
CONECT   28   14                                                            
CONECT   29   16                                                            
MASTER        0    0    0    0    0    0    0    0   29    0   62    0
END

Synonyms

Not Available

Molecular Formula

C₁₉H₂₅NO₅

Average Mass

347.411

Monoisotopic Mass

347.173272909

IUPAC Name

4-{[(1R,2R,4aS,5R,8aR)-2-ethyl-5-hydroxy-1,6-dimethyl-4-oxo-1,2,3,4,4a,5,8,8a-octahydronaphthalen-1-yl](hydroxy)methylidene}-5-hydroxy-3,4-dihydro-2H-pyrrol-3-one

Traditional Name

4-{[(1R,2R,4aS,5R,8aR)-2-ethyl-5-hydroxy-1,6-dimethyl-4-oxo-2,3,4a,5,8,8a-hexahydronaphthalen-1-yl](hydroxy)methylidene}-5-hydroxy-2H-pyrrol-3-one

CAS Registry Number

Not Available

SMILES

[H][C@@]1(CC)CC(=O)[C@]2([H])[C@@]([H])(O)C(C)=CC[C@@]2([H])[C@]1(C)C(O)=C1C(=O)CN=C1O

InChI Identifier

InChI=1S/C19H25NO5/c1-4-10-7-12(21)14-11(6-5-9(2)16(14)23)19(10,3)17(24)15-13(22)8-20-18(15)25/h5,10-11,14,16,23-24H,4,6-8H2,1-3H3,(H,20,25)/t10-,11-,14-,16+,19-/m1/s1

InChI Key

VHGTVBAZDFWWOL-XHKYUUOZSA-N

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as pyrrolidine-3-ones. These are pyrrolidines which bear a C=O group at position 3 of the pyrrolidine ring.

Kingdom

Organic compounds

Super Class

Organoheterocyclic compounds

Class

Pyrrolidines

Sub Class

Pyrrolidones

Direct Parent

Pyrrolidine-3-ones

Alternative Parents

Substituents

2-pyrrolidone
3-pyrrolidone
Vinylogous acid
Carboxamide group
Ketone
Lactam
Cyclic ketone
Secondary carboxylic acid amide
Secondary alcohol
Carboxylic acid derivative
Enol
Azacycle
Organonitrogen compound
Alcohol
Carbonyl group
Organic oxide
Hydrocarbon derivative
Organooxygen compound
Organic nitrogen compound
Organic oxygen compound
Aliphatic heteropolycyclic compound

Molecular Framework

Aliphatic heteropolycyclic compounds

External Descriptors

Not Available

Functional Ontology

Not Available

Physical Properties

State

Expected Solid

Predicted Properties

Property	Value	Source
Water Solubility	0.96 g/L	ALOGPS
logP	1.33	ALOGPS
logP	1.62	ChemAxon
logS	-2.6	ALOGPS
pKa (Strongest Acidic)	4.16	ChemAxon
pKa (Strongest Basic)	1.48	ChemAxon
Physiological Charge	-1	ChemAxon
Hydrogen Acceptor Count	6	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	107.19 Å²	ChemAxon
Rotatable Bond Count	2	ChemAxon
Refractivity	93.86 m³·mol⁻¹	ChemAxon
Polarizability	36.43 Å³	ChemAxon
Number of Rings	3	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

Microbial Pathways

Pathways

Not Available

Metabolic Reactions

Reactions

This table shows at most 20 reactions. For the full list of associated reactions:

See All Associated 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
Bacteria	Actinobacteria	1	Human ; Human feces; Human saliva; Human urine; Human supragingival plaque; Human sputum; Human subgingival plaque	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

78438099

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

102313697

PDB ID

Not Available

ChEBI ID

Not Available

Food Biomarker Ontology

Not Available

CMMC Knowledgebase

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 Streptosetin A (MMDBc0015424)

MOL for #<Metabolite:0x00007f8dc91764f8>

3D MOL for #<Metabolite:0x00007f8dc91764f8>

3D SDF for #<Metabolite:0x00007f8dc91764f8>

3D-SDF for #<Metabolite:0x00007f8dc91764f8>

PDB for #<Metabolite:0x00007f8dc91764f8>

3D PDB for #<Metabolite:0x00007f8dc91764f8>

SMILES for #<Metabolite:0x00007f8dc91764f8>

INCHI for #<Metabolite:0x00007f8dc91764f8>

Structure for #<Metabolite:0x00007f8dc91764f8>

3D Structure for #<Metabolite:0x00007f8dc91764f8>