NP-MRD: Showing NP-Card for 8-epi-xanthatin (NP0315880)

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Record Information

Version

2.0

Created at

2022-09-11 14:43:52 UTC

Updated at

2022-09-11 14:43:52 UTC

NP-MRD ID

NP0315880

Secondary Accession Numbers

None

Natural Product Identification

Common Name

8-epi-xanthatin

Description

8-Epi-Xanthatin, also known as xanthatin, belongs to the class of organic compounds known as xanthanolides. These are sesquiterpenoids with a structure based on the xanthanolide skeleton consistsing of a cycloheptane ring usually attached to a four-carbon chain (at carbon 1 ) and a methyl group (at carbon 10), and fused to a five-member lactone ring (sharing carbons 7 and 8). The lactone ring can be conjugated with a methyl or methylene group at position 11. 8-epi-xanthatin is found in Xanthium strumarium. 8-epi-xanthatin was first documented in 2013 (PMID: 24098541). Based on a literature review a small amount of articles have been published on 8-epi-Xanthatin (PMID: 33164240) (PMID: 32058161) (PMID: 29960031) (PMID: 29112300).

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 36 37  0  0  0  0  0  0  0  0999 V2000
    4.2067    1.2189    1.1188 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5118    0.1325    0.8374 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.0019   -0.9281   -0.0533 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.0921   -0.9469   -0.6516 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.9694   -1.8861   -0.0633 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.7333   -1.2067    0.2343 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.3192   -0.4961   -1.0022 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1750   -0.4702   -1.0935 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.5543    0.3613   -2.3208 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7592    0.1154    0.1051 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2033    0.0375    0.2156 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9230   -0.5361   -0.7202 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3909   -0.5756   -0.5367 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0176    0.0142    0.6639 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.1097   -1.1160   -1.4109 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1115    0.7137    1.1195 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3026    0.9793    1.3840 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1640   -0.2496    1.3201 C   0  0  2  0  0  0  0  0  0  0  0  0
    5.1858    1.4014    0.7115 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.7926    1.9626    1.7806 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.0411   -1.9313    0.6510 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.8016   -0.8859   -1.9237 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.6549    0.5737   -0.9347 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5577   -1.4912   -1.2598 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.3350    0.9500   -2.6452 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3535    1.0530   -2.0357 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8310   -0.2896   -3.1542 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6925    0.4698    1.1034 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4876   -0.9808   -1.6048 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6226    1.0499    0.7973 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.1060    0.1059    0.5387 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.7552   -0.6024    1.5400 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7946    1.0555    1.8712 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4042    1.3719    2.4161 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.6948    1.7975    0.7207 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.2339   -0.7715    2.2814 H   0  0  0  0  0  0  0  0  0  0  0  0
  9  8  1  0
  8  7  1  0
  7  6  1  0
  6  5  1  0
  5  3  1  0
  3  4  2  0
  3  2  1  0
  2  1  2  3
  2 18  1  0
 18 17  1  0
 17 16  1  0
 16 10  2  0
 10 11  1  0
 11 12  2  0
 12 13  1  0
 13 14  1  0
 13 15  2  0
 10  8  1  0
 18  6  1  0
  9 25  1  0
  9 26  1  0
  9 27  1  0
  8 24  1  6
  7 22  1  0
  7 23  1  0
  6 21  1  1
  1 19  1  0
  1 20  1  0
 18 36  1  1
 17 34  1  0
 17 35  1  0
 16 33  1  0
 11 28  1  0
 12 29  1  0
 14 30  1  0
 14 31  1  0
 14 32  1  0
M  END


  Mrv1652309112216432D          

 18 19  0  0  1  0            999 V2000
    0.7017   -2.4282    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.9566   -1.6436    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4717   -0.9761    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3533   -0.9761    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.9566   -0.3087    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.7413   -0.5636    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.3863   -0.0492    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1906   -0.2328    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.7050    0.4122    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5485   -0.9761    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.3735   -0.9761    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.7860   -1.6906    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.6110   -1.6906    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.0235   -0.9761    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.0235   -2.4051    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.1906   -1.7194    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.3863   -1.9030    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.7413   -1.3886    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
  1  2  2  0  0  0  0
  2  3  1  0  0  0  0
  3  4  2  0  0  0  0
  3  5  1  0  0  0  0
  6  5  1  6  0  0  0
  6  7  1  0  0  0  0
  7  8  1  0  0  0  0
  8  9  1  6  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  1  0  0  0  0
 13 15  2  0  0  0  0
 10 16  2  0  0  0  0
 16 17  1  0  0  0  0
 17 18  1  0  0  0  0
 18  2  1  6  0  0  0
  6 18  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0315880

> <DATABASE_NAME>
NP-MRD

> <SMILES>
C[C@H]1C[C@H]2OC(=O)C(=C)[C@H]2CC=C1\C=C\C(C)=O

> <INCHI_IDENTIFIER>
InChI=1S/C15H18O3/c1-9-8-14-13(11(3)15(17)18-14)7-6-12(9)5-4-10(2)16/h4-6,9,13-14H,3,7-8H2,1-2H3/b5-4+/t9-,13+,14+/m0/s1

> <INCHI_KEY>
RBRPTFMVULVGIC-MDKNCZOUSA-N

> <FORMULA>
C15H18O3

> <MOLECULAR_WEIGHT>
246.306

> <EXACT_MASS>
246.12559444

> <JCHEM_ACCEPTOR_COUNT>
2

> <JCHEM_ATOM_COUNT>
36

> <JCHEM_AVERAGE_POLARIZABILITY>
27.1094033900811

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
0

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(3aR,7S,8aR)-7-methyl-3-methylidene-6-[(1E)-3-oxobut-1-en-1-yl]-2H,3H,3aH,4H,7H,8H,8aH-cyclohepta[b]furan-2-one

> <JCHEM_LOGP>
2.6284772503333333

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_ACIDIC>
19.708896539214564

> <JCHEM_PKA_STRONGEST_BASIC>
-4.623600556673007

> <JCHEM_POLAR_SURFACE_AREA>
43.370000000000005

> <JCHEM_REFRACTIVITY>
70.95920000000001

> <JCHEM_ROTATABLE_BOND_COUNT>
2

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
(3aR,7S,8aR)-7-methyl-3-methylidene-6-[(1E)-3-oxobut-1-en-1-yl]-3aH,4H,7H,8H,8aH-cyclohepta[b]furan-2-one

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 11-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   11-SEP-22         0                                  
HETATM    1  C   UNK     0       1.310  -4.533   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       1.786  -3.068   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       0.881  -1.822   0.000  0.00  0.00           C+0
HETATM    4  O   UNK     0      -0.659  -1.822   0.000  0.00  0.00           O+0
HETATM    5  O   UNK     0       1.786  -0.576   0.000  0.00  0.00           O+0
HETATM    6  C   UNK     0       3.250  -1.052   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       4.454  -0.092   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       5.956  -0.435   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       6.916   0.769   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       6.624  -1.822   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       8.164  -1.822   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       8.934  -3.156   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0      10.474  -3.156   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0      11.244  -1.822   0.000  0.00  0.00           C+0
HETATM   15  O   UNK     0      11.244  -4.489   0.000  0.00  0.00           O+0
HETATM   16  C   UNK     0       5.956  -3.210   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       4.454  -3.552   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       3.250  -2.592   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3   18                                                  
CONECT    3    2    4    5                                                  
CONECT    4    3                                                            
CONECT    5    3    6                                                       
CONECT    6    5    7   18                                                  
CONECT    7    6    8                                                       
CONECT    8    7    9   10                                                  
CONECT    9    8                                                            
CONECT   10    8   11   16                                                  
CONECT   11   10   12                                                       
CONECT   12   11   13                                                       
CONECT   13   12   14   15                                                  
CONECT   14   13                                                            
CONECT   15   13                                                            
CONECT   16   10   17                                                       
CONECT   17   16   18                                                       
CONECT   18   17    2    6                                                  
MASTER        0    0    0    0    0    0    0    0   18    0   38    0
END

View in JSmol

Synonyms

Value	Source
Xanthatin	MeSH

Chemical Formula

C₁₅H₁₈O₃

Average Mass

246.3060 Da

Monoisotopic Mass

246.12559 Da

IUPAC Name

Not Available

Traditional Name

Not Available

CAS Registry Number

Not Available

SMILES

C[C@H]1C[C@H]2OC(=O)C(=C)[C@H]2CC=C1\C=C\C(C)=O

InChI Identifier

InChI=1S/C15H18O3/c1-9-8-14-13(11(3)15(17)18-14)7-6-12(9)5-4-10(2)16/h4-6,9,13-14H,3,7-8H2,1-2H3/b5-4+/t9-,13+,14+/m0/s1

InChI Key

RBRPTFMVULVGIC-MDKNCZOUSA-N

Experimental Spectra

Not Available

Predicted Spectra

Spectrum Type	Description	Depositor ID	Depositor Organization	Depositor	Deposition Date	View
1D NMR	¹³C NMR Spectrum (1D, 25 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 252 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 50 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 75 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 101 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 126 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 151 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 176 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 201 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 226 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum

Chemical Shift Submissions

Not Available

Species

Species of Origin

Species Name	Source	Reference
Xanthium strumarium	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as xanthanolides. These are sesquiterpenoids with a structure based on the xanthanolide skeleton consistsing of a cycloheptane ring usually attached to a four-carbon chain (at carbon 1 ) and a methyl group (at carbon 10), and fused to a five-member lactone ring (sharing carbons 7 and 8). The lactone ring can be conjugated with a methyl or methylene group at position 11.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Prenol lipids

Sub Class

Terpene lactones

Direct Parent

Xanthanolides

Alternative Parents

Substituents

Xanthanolide-skeleton
Sesquiterpenoid
Xanthane sesquiterpenoid
Gamma butyrolactone
Acryloyl-group
Enone
Oxolane
Enoate ester
Alpha,beta-unsaturated carboxylic ester
Alpha,beta-unsaturated ketone
Lactone
Ketone
Carboxylic acid ester
Monocarboxylic acid or derivatives
Oxacycle
Carboxylic acid derivative
Organoheterocyclic compound
Organic oxide
Carbonyl group
Organooxygen compound
Organic oxygen compound
Hydrocarbon derivative
Aliphatic heteropolycyclic compound

Molecular Framework

Aliphatic heteropolycyclic compounds

External Descriptors

Not Available

Physical Properties

State

Not Available

Experimental Properties

Property	Value	Reference
Melting Point	Not Available	Not Available
Boiling Point	Not Available	Not Available
Water Solubility	Not Available	Not Available
LogP	Not Available	Not Available

Predicted Properties

Property	Value	Source

External Links

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

9869170

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

11694445

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Chen F, Hao F, Li C, Gou J, Lu D, Gong F, Tang H, Zhang Y: Identifying three ecological chemotypes of Xanthium strumarium glandular trichomes using a combined NMR and LC-MS method. PLoS One. 2013 Oct 2;8(10):e76621. doi: 10.1371/journal.pone.0076621. eCollection 2013. [PubMed:24098541 ]
Lee YJ, Choi J, Yoon YJ, Sim Y, Ryu HW, Oh SR, Kim DY, Hwang J, Chi SW, Han DC, Kwon BM: 8-Epi-xanthatin induces the apoptosis of DU145 prostate carcinoma cells through signal transducer and activator of transcription 3 inhibition and reactive oxygen species generation. Phytother Res. 2021 Mar;35(3):1508-1520. doi: 10.1002/ptr.6918. Epub 2020 Nov 8. [PubMed:33164240 ]
Fang XY, Zhang H, Zhao L, Tan S, Ren QC, Wang L, Shen XF: Corrigendum to "A new xanthatin analogue 1beta-hydroxyl-5alpha-chloro-8-epi-xanthatin induces apoptosis through ROS-mediated ERK/p38 MAPK activation and JAK2/STAT3 inhibition in human hepatocellular carcinoma" [Biochimie 152C (2018) 43-52]. Biochimie. 2020 Apr-May;171-172:21-22. doi: 10.1016/j.biochi.2020.02.001. Epub 2020 Feb 12. [PubMed:32058161 ]
Fang XY, Zhang H, Zhao L, Tan S, Ren QC, Wang L, Shen XF: A new xanthatin analogue 1beta-hydroxyl-5alpha-chloro-8-epi-xanthatin induces apoptosis through ROS-mediated ERK/p38 MAPK activation and JAK2/STAT3 inhibition in human hepatocellular carcinoma. Biochimie. 2018 Sep;152:43-52. doi: 10.1016/j.biochi.2018.06.018. Epub 2018 Jun 28. [PubMed:29960031 ]
Feng J, Lei X, Bao R, Li Y, Xiao C, Hu L, Tang Y: Enantioselective and Collective Total Syntheses of Xanthanolides. Angew Chem Int Ed Engl. 2017 Dec 18;56(51):16323-16327. doi: 10.1002/anie.201710846. Epub 2017 Nov 27. [PubMed:29112300 ]
LOTUS database [Link]

Showing NP-Card for 8-epi-xanthatin (NP0315880)

MOL for NP0315880 (8-epi-xanthatin)

3D MOL for NP0315880 (8-epi-xanthatin)

3D SDF for NP0315880 (8-epi-xanthatin)

3D-SDF for NP0315880 (8-epi-xanthatin)

PDB for NP0315880 (8-epi-xanthatin)

3D PDB for NP0315880 (8-epi-xanthatin)

SMILES for NP0315880 (8-epi-xanthatin)

INCHI for NP0315880 (8-epi-xanthatin)

Structure for NP0315880 (8-epi-xanthatin)

3D Structure for NP0315880 (8-epi-xanthatin)