MiMeDB: Showing metabocard for PR-toxin (MMDBc0010237)

Record Information

Version

1.0

Status

Detected and Quantified

Creation Date

2021-05-15 02:28:35 UTC

Update Date

2022-08-31 06:31:28 UTC

Metabolite ID

MMDBc0010237

Metabolite Identification

Common Name

PR-toxin

Description

Toxin PR belongs to the class of organic compounds known as oxepanes. Oxepanes are compounds containing an oxepane ring, which is a seven-member saturated aliphatic heterocycle with one oxygen and six carbon atoms. Toxin PR is an extremely weak basic (essentially neutral) compound (based on its pKa).

Structure

MOL SDF PDB SMILES InChI


  Mrv1533004241505352D          

 23 26  0  0  0  0            999 V2000
    2.4640   -3.6670    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1029   -2.9252    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2800   -2.8669    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8181   -3.5505    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0049   -3.4922    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4668   -4.1758    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3659   -2.7504    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.9190   -2.1251    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.5580   -1.3833    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.3809   -1.4416    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2039   -1.4998    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6658   -0.8163    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4887   -0.8745    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9507   -0.1910    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.8497   -1.6164    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.3878   -2.2999    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5649   -2.2417    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9259   -2.9835    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.5916   -1.2553    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.5333   -2.0783    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.2545   -2.4789    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.4035   -2.8930    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.0442   -3.4128    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
  2  3  1  0  0  0  0
  3  4  1  0  0  0  0
  4  5  1  0  0  0  0
  5  6  2  0  0  0  0
  5  7  1  0  0  0  0
  3  8  1  0  0  0  0
  8  9  1  0  0  0  0
  9 10  1  0  0  0  0
  8 10  1  0  0  0  0
 10 11  1  0  0  0  0
 11 12  2  0  0  0  0
 12 13  1  0  0  0  0
 13 14  2  0  0  0  0
 13 15  1  0  0  0  0
 15 16  1  0  0  0  0
 16 17  1  0  0  0  0
  2 17  1  0  0  0  0
 11 17  1  0  0  0  0
 17 18  1  0  0  0  0
 15 19  1  0  0  0  0
 19 20  1  0  0  0  0
 15 20  1  0  0  0  0
 20 21  1  0  0  0  0
 20 22  1  0  0  0  0
 22 23  2  0  0  0  0
M  END
> <DATABASE_ID>
MMDBc0010237

> <DATABASE_NAME>
MIME

> <SMILES>
CC1C(OC(C)=O)C2OC2C2=CC(=O)C3(CC12C)OC3(C)C=O

> <INCHI_IDENTIFIER>
InChI=1S/C17H20O6/c1-8-12(21-9(2)19)14-13(22-14)10-5-11(20)17(6-15(8,10)3)16(4,7-18)23-17/h5,7-8,12-14H,6H2,1-4H3

> <INCHI_KEY>
GSPFUBNBRPVALJ-UHFFFAOYSA-N

> <FORMULA>
C17H20O6

> <MOLECULAR_WEIGHT>
320.341

> <EXACT_MASS>
320.125988364

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_ATOM_COUNT>
43

> <JCHEM_AVERAGE_POLARIZABILITY>
32.182812277617465

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
0

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
3'-formyl-3',5a,6-trimethyl-3-oxo-3,5,5a,6,7,7a-hexahydro-1aH-spiro[naphtho[1,2-b]oxirene-4,2'-oxirane]-7-yl acetate

> <ALOGPS_LOGP>
1.62

> <JCHEM_LOGP>
0.9696229983333332

> <ALOGPS_LOGS>
-2.70

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
4

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_ACIDIC>
15.912445008408021

> <JCHEM_PKA_STRONGEST_BASIC>
-4.0022699322590025

> <JCHEM_POLAR_SURFACE_AREA>
85.5

> <JCHEM_REFRACTIVITY>
78.2546

> <JCHEM_ROTATABLE_BOND_COUNT>
3

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
6.46e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
3'-formyl-3',5a,6-trimethyl-3-oxo-5,6,7,7a-tetrahydro-1aH-spiro[naphtho[1,2-b]oxirene-4,2'-oxirane]-7-yl acetate

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 24-APR-15   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   24-APR-15         0                                  
HETATM    1  C   UNK     0       4.599  -6.845   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       3.925  -5.460   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       2.389  -5.352   0.000  0.00  0.00           C+0
HETATM    4  O   UNK     0       1.527  -6.628   0.000  0.00  0.00           O+0
HETATM    5  C   UNK     0      -0.009  -6.519   0.000  0.00  0.00           C+0
HETATM    6  O   UNK     0      -0.871  -7.795   0.000  0.00  0.00           O+0
HETATM    7  C   UNK     0      -0.683  -5.134   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       1.715  -3.967   0.000  0.00  0.00           C+0
HETATM    9  O   UNK     0       1.042  -2.582   0.000  0.00  0.00           O+0
HETATM   10  C   UNK     0       2.578  -2.691   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       4.114  -2.800   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       4.976  -1.524   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       6.512  -1.632   0.000  0.00  0.00           C+0
HETATM   14  O   UNK     0       7.375  -0.357   0.000  0.00  0.00           O+0
HETATM   15  C   UNK     0       7.186  -3.017   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       6.324  -4.293   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       4.788  -4.184   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       5.462  -5.569   0.000  0.00  0.00           C+0
HETATM   19  O   UNK     0       8.571  -2.343   0.000  0.00  0.00           O+0
HETATM   20  C   UNK     0       8.462  -3.879   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0       9.808  -4.627   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0       8.220  -5.400   0.000  0.00  0.00           C+0
HETATM   23  O   UNK     0       9.416  -6.370   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3   17                                                  
CONECT    3    2    4    8                                                  
CONECT    4    3    5                                                       
CONECT    5    4    6    7                                                  
CONECT    6    5                                                            
CONECT    7    5                                                            
CONECT    8    3    9   10                                                  
CONECT    9    8   10                                                       
CONECT   10    9    8   11                                                  
CONECT   11   10   12   17                                                  
CONECT   12   11   13                                                       
CONECT   13   12   14   15                                                  
CONECT   14   13                                                            
CONECT   15   13   16   19   20                                             
CONECT   16   15   17                                                       
CONECT   17   16    2   11   18                                             
CONECT   18   17                                                            
CONECT   19   15   20                                                       
CONECT   20   19   15   21   22                                             
CONECT   21   20                                                            
CONECT   22   20   23                                                       
CONECT   23   22                                                            
MASTER        0    0    0    0    0    0    0    0   23    0   52    0
END

Synonyms

Value	Source
3'-Formyl-3,3',3a-trimethyl-6-oxo-2,3,3a,4,6,7b-hexahydro-1ah-spiro[naphtho[1,2-b]oxirene-5,2'-oxirane]-2-yl acetic acid	Generator

Molecular Formula

C₁₇H₂₀O₆

Average Mass

320.341

Monoisotopic Mass

320.125988364

IUPAC Name

3'-formyl-3',5a,6-trimethyl-3-oxo-3,5,5a,6,7,7a-hexahydro-1aH-spiro[naphtho[1,2-b]oxirene-4,2'-oxirane]-7-yl acetate

Traditional Name

3'-formyl-3',5a,6-trimethyl-3-oxo-5,6,7,7a-tetrahydro-1aH-spiro[naphtho[1,2-b]oxirene-4,2'-oxirane]-7-yl acetate

CAS Registry Number

Not Available

SMILES

CC1C(OC(C)=O)C2OC2C2=CC(=O)C3(CC12C)OC3(C)C=O

InChI Identifier

InChI=1S/C17H20O6/c1-8-12(21-9(2)19)14-13(22-14)10-5-11(20)17(6-15(8,10)3)16(4,7-18)23-17/h5,7-8,12-14H,6H2,1-4H3

InChI Key

GSPFUBNBRPVALJ-UHFFFAOYSA-N

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as oxepanes. Oxepanes are compounds containing an oxepane ring, which is a seven-member saturated aliphatic heterocycle with one oxygen and six carbon atoms.

Kingdom

Organic compounds

Super Class

Organoheterocyclic compounds

Class

Oxepanes

Sub Class

Not Available

Direct Parent

Oxepanes

Alternative Parents

Substituents

Oxepane
Cyclohexenone
Carboxylic acid ester
Ketone
Oxacycle
Monocarboxylic acid or derivatives
Ether
Oxirane
Dialkyl ether
Carboxylic acid derivative
Organic oxygen compound
Organooxygen compound
Aldehyde
Carbonyl group
Hydrocarbon derivative
Organic oxide
Aliphatic heteropolycyclic compound

Molecular Framework

Aliphatic heteropolycyclic compounds

External Descriptors

a sesquiterpenoid (CPD-13303 )

Functional Ontology

Not Available

Physical Properties

State

Expected Solid

Predicted Properties

Property	Value	Source
Water Solubility	0.65 g/L	ALOGPS
logP	1.62	ALOGPS
logP	0.97	ChemAxon
logS	-2.7	ALOGPS
pKa (Strongest Acidic)	15.91	ChemAxon
pKa (Strongest Basic)	-4	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	0	ChemAxon
Polar Surface Area	85.5 Å²	ChemAxon
Rotatable Bond Count	3	ChemAxon
Refractivity	78.25 m³·mol⁻¹	ChemAxon
Polarizability	32.18 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

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

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

624035

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 PR-toxin (MMDBc0010237)

MOL for #<Metabolite:0x00007f923c21c5e8>

3D MOL for #<Metabolite:0x00007f923c21c5e8>

3D SDF for #<Metabolite:0x00007f923c21c5e8>

3D-SDF for #<Metabolite:0x00007f923c21c5e8>

PDB for #<Metabolite:0x00007f923c21c5e8>

3D PDB for #<Metabolite:0x00007f923c21c5e8>

SMILES for #<Metabolite:0x00007f923c21c5e8>

INCHI for #<Metabolite:0x00007f923c21c5e8>

Structure for #<Metabolite:0x00007f923c21c5e8>

3D Structure for #<Metabolite:0x00007f923c21c5e8>