NP-MRD: Showing NP-Card for Pentalenolactone E (NP0064758)

Jump To Section:

Identification Spectra BioTaxonomy ChemoTaxonomy Physical properties Links References XML

Record Information

Version

2.0

Created at

2022-04-28 09:02:29 UTC

Updated at

2022-04-28 09:02:29 UTC

NP-MRD ID

NP0064758

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Pentalenolactone E

Description

Pentalenolactone E belongs to the class of organic compounds known as terpene lactones. These are prenol lipids containing a lactone ring. Pentalenolactone E is found in Streptomyces sp. UC5319. Pentalenolactone E was first documented in 2011 (PMID: 21250661). Based on a literature review a small amount of articles have been published on pentalenolactone E.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 37 39  0  0  0  0  0  0  0  0999 V2000
   -0.6834   -2.9123    0.2874 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1907   -2.0802   -0.2482 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1674   -2.6036   -1.1988 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.9828   -3.6823   -1.8018 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.3117   -1.7990   -1.3703 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.7408   -1.0923   -0.2211 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6639   -0.2985    0.4505 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.8116    1.1197    0.0512 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.7474    2.0623    0.6659 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4915    1.7035    1.5880 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.8041    3.3647    0.2162 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.9664    1.3556   -0.9290 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1805    0.1484   -1.2813 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.2716    0.4687   -1.4528 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8839    0.4202   -0.0644 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.3159    1.8510    0.2747 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1143   -0.4262   -0.0172 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7812   -0.0494    0.8455 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2816   -0.6407    0.0245 C   0  0  1  0  0  0  0  0  0  0  0  0
   -0.6756   -3.9448    0.0305 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4160   -2.5433    0.9952 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.5903   -0.4316   -0.4622 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.1389   -1.8240    0.5398 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7095   -0.4137    1.5652 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.1859    4.0901    0.8008 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.8441    2.3212   -1.4359 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.5392   -0.3977   -2.1534 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7894   -0.2492   -2.1464 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3568    1.4606   -1.9107 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8867    2.0835    1.2695 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9192    2.5770   -0.4572 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4191    1.9581    0.2547 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9350    0.1462   -0.5113 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3703   -0.5931    1.0519 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0235   -1.3803   -0.5610 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1420   -0.6542    1.6989 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3648    0.8859    1.3270 H   0  0  0  0  0  0  0  0  0  0  0  0
 15 16  1  1
 15 17  1  0
 15 14  1  0
 14 13  1  0
 13 12  1  0
 12  8  2  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
 19  2  1  0
 19 18  1  1
  8  9  1  0
  9 11  1  0
  9 10  2  0
 18 15  1  0
 19 13  1  0
 19  7  1  0
 16 30  1  0
 16 31  1  0
 16 32  1  0
 17 33  1  0
 17 34  1  0
 17 35  1  0
 14 28  1  0
 14 29  1  0
 13 27  1  6
 12 26  1  0
  7 24  1  1
  6 22  1  0
  6 23  1  0
  1 20  1  0
  1 21  1  0
 18 36  1  0
 18 37  1  0
 11 25  1  0
M  END


  Mrv1652304282211022D          

 19 21  0  0  1  0            999 V2000
    3.6915    0.0167    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.0667    0.5555    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2209    1.3660    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.2877    0.2839    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6629    0.8226    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1335   -0.5266    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.7582   -1.0654    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    3.5372   -0.7937    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4389   -1.8261    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6167   -1.7574    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.4280   -0.9543    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.8032   -0.4155    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1226    0.3452    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9447    0.2765    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4037    0.7499    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0963    1.1698    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8666   -2.5316    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.6914   -2.5139    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.4694   -3.2547    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
  2  4  1  0  0  0  0
  4  5  2  0  0  0  0
  4  6  1  0  0  0  0
  6  7  1  0  0  0  0
  7  8  1  0  0  0  0
  1  8  1  0  0  0  0
  7  9  1  1  0  0  0
  9 10  2  0  0  0  0
 11 10  1  6  0  0  0
  6 11  1  0  0  0  0
 11 12  1  0  0  0  0
 12 13  1  0  0  0  0
 13 14  1  0  0  0  0
  6 14  1  6  0  0  0
 13 15  1  0  0  0  0
 13 16  1  0  0  0  0
  9 17  1  0  0  0  0
 17 18  2  0  0  0  0
 17 19  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0064758

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CC1(C)C[C@H]2C=C([C@@H]3COC(=O)C(=C)[C@]23C1)C(O)=O

> <INCHI_IDENTIFIER>
InChI=1S/C15H18O4/c1-8-13(18)19-6-11-10(12(16)17)4-9-5-14(2,3)7-15(8,9)11/h4,9,11H,1,5-7H2,2-3H3,(H,16,17)/t9-,11+,15-/m1/s1

> <INCHI_KEY>
VDWJABPVVAYLBS-BPYAMOTFSA-N

> <FORMULA>
C15H18O4

> <MOLECULAR_WEIGHT>
262.305

> <EXACT_MASS>
262.12050906

> <JCHEM_ACCEPTOR_COUNT>
3

> <JCHEM_ATOM_COUNT>
37

> <JCHEM_AVERAGE_POLARIZABILITY>
27.023895004249496

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(1R,5S,8R)-3,3-dimethyl-12-methylidene-11-oxo-10-oxatricyclo[6.4.0.0^{1,5}]dodec-6-ene-7-carboxylic acid

> <ALOGPS_LOGP>
2.63

> <JCHEM_LOGP>
2.139703047333333

> <ALOGPS_LOGS>
-2.79

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-1

> <JCHEM_PKA_STRONGEST_ACIDIC>
4.469058318108773

> <JCHEM_PKA_STRONGEST_BASIC>
-6.862781994353964

> <JCHEM_POLAR_SURFACE_AREA>
63.60000000000001

> <JCHEM_REFRACTIVITY>
69.06799999999998

> <JCHEM_ROTATABLE_BOND_COUNT>
1

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
4.23e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(1R,5S,8R)-3,3-dimethyl-12-methylidene-11-oxo-10-oxatricyclo[6.4.0.0^{1,5}]dodec-6-ene-7-carboxylic acid

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 28-APR-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   28-APR-22         0                                  
HETATM    1  O   UNK     0       6.891   0.031   0.000  0.00  0.00           O+0
HETATM    2  C   UNK     0       5.725   1.037   0.000  0.00  0.00           C+0
HETATM    3  O   UNK     0       6.012   2.550   0.000  0.00  0.00           O+0
HETATM    4  C   UNK     0       4.270   0.530   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       3.104   1.536   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       3.982  -0.983   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       5.149  -1.989   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       6.603  -1.482   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       4.553  -3.409   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       3.018  -3.280   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       2.666  -1.781   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       1.499  -0.776   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       2.096   0.644   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       3.630   0.516   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0       0.754   1.400   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0       2.046   2.184   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       5.351  -4.726   0.000  0.00  0.00           C+0
HETATM   18  O   UNK     0       6.891  -4.693   0.000  0.00  0.00           O+0
HETATM   19  O   UNK     0       4.610  -6.075   0.000  0.00  0.00           O+0
CONECT    1    2    8                                                       
CONECT    2    1    3    4                                                  
CONECT    3    2                                                            
CONECT    4    2    5    6                                                  
CONECT    5    4                                                            
CONECT    6    4    7   11   14                                             
CONECT    7    6    8    9                                                  
CONECT    8    7    1                                                       
CONECT    9    7   10   17                                                  
CONECT   10    9   11                                                       
CONECT   11   10    6   12                                                  
CONECT   12   11   13                                                       
CONECT   13   12   14   15   16                                             
CONECT   14   13    6                                                       
CONECT   15   13                                                            
CONECT   16   13                                                            
CONECT   17    9   18   19                                                  
CONECT   18   17                                                            
CONECT   19   17                                                            
MASTER        0    0    0    0    0    0    0    0   19    0   42    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₅H₁₈O₄

Average Mass

262.3050 Da

Monoisotopic Mass

262.12051 Da

IUPAC Name

(1R,5S,8R)-3,3-dimethyl-12-methylidene-11-oxo-10-oxatricyclo[6.4.0.0^{1,5}]dodec-6-ene-7-carboxylic acid

Traditional Name

(1R,5S,8R)-3,3-dimethyl-12-methylidene-11-oxo-10-oxatricyclo[6.4.0.0^{1,5}]dodec-6-ene-7-carboxylic acid

CAS Registry Number

Not Available

SMILES

CC1(C)C[C@H]2C=C([C@@H]3COC(=O)C(=C)[C@]23C1)C(O)=O

InChI Identifier

InChI=1S/C15H18O4/c1-8-13(18)19-6-11-10(12(16)17)4-9-5-14(2,3)7-15(8,9)11/h4,9,11H,1,5-7H2,2-3H3,(H,16,17)/t9-,11+,15-/m1/s1

InChI Key

VDWJABPVVAYLBS-BPYAMOTFSA-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, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 252 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 50 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 75 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 101 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 126 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 151 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 176 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 201 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 226 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, D₂O, 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
Streptomyces exfoliatus	Bacteria	KNApSAcK

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as terpene lactones. These are prenol lipids containing a lactone ring.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Prenol lipids

Sub Class

Terpene lactones

Direct Parent

Terpene lactones

Alternative Parents

Substituents

Terpene lactone
Iridoid-skeleton
Monoterpenoid
Delta valerolactone
Delta_valerolactone
Oxane
Dicarboxylic acid or derivatives
Alpha,beta-unsaturated carboxylic ester
Enoate ester
Lactone
Carboxylic acid ester
Carboxylic acid
Carboxylic acid derivative
Organoheterocyclic compound
Oxacycle
Hydrocarbon derivative
Organooxygen compound
Organic oxide
Carbonyl group
Organic oxygen compound
Aliphatic heteropolycyclic compound

Molecular Framework

Aliphatic heteropolycyclic compounds

External Descriptors

organic heterotricyclic compound (CHEBI:70807 )
alpha,beta-unsaturated monocarboxylic acid (CHEBI:70807 )
sesquiterpene lactone (CHEBI:70807 )

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
logP	2.63	ALOGPS
logP	2.14	ChemAxon
logS	-2.8	ALOGPS
pKa (Strongest Acidic)	4.47	ChemAxon
pKa (Strongest Basic)	-6.9	ChemAxon
Physiological Charge	-1	ChemAxon
Hydrogen Acceptor Count	3	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	63.6 Å²	ChemAxon
Rotatable Bond Count	1	ChemAxon
Refractivity	69.07 m³·mol⁻¹	ChemAxon
Polarizability	27.02 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

External Links

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

Chemspider ID

KEGG Compound ID

BioCyc ID

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

11054473

PDB ID

Not Available

ChEBI ID

70807

Good Scents ID

Not Available

References

General References

Seo MJ, Zhu D, Endo S, Ikeda H, Cane DE: Genome mining in Streptomyces. Elucidation of the role of Baeyer-Villiger monooxygenases and non-heme iron-dependent dehydrogenase/oxygenases in the final steps of the biosynthesis of pentalenolactone and neopentalenolactone. Biochemistry. 2011 Mar 15;50(10):1739-54. doi: 10.1021/bi1019786. Epub 2011 Feb 8. [PubMed:21250661 ]

Showing NP-Card for Pentalenolactone E (NP0064758)

MOL for NP0064758 (Pentalenolactone E)

3D MOL for NP0064758 (Pentalenolactone E)

3D SDF for NP0064758 (Pentalenolactone E)

3D-SDF for NP0064758 (Pentalenolactone E)

PDB for NP0064758 (Pentalenolactone E)

3D PDB for NP0064758 (Pentalenolactone E)

SMILES for NP0064758 (Pentalenolactone E)

INCHI for NP0064758 (Pentalenolactone E)

Structure for NP0064758 (Pentalenolactone E)

3D Structure for NP0064758 (Pentalenolactone E)