NP-MRD: Showing NP-Card for (6r,7r)-3-butylidene-6,7-dihydroxy-4,5,6,7-tetrahydro-2-benzofuran-1-one (NP0142790)

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Record Information

Version

2.0

Created at

2022-09-01 21:24:43 UTC

Updated at

2022-09-01 21:24:43 UTC

NP-MRD ID

NP0142790

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(6r,7r)-3-butylidene-6,7-dihydroxy-4,5,6,7-tetrahydro-2-benzofuran-1-one

Description

Senkyunolide I belongs to the class of organic compounds known as isobenzofurans. These are organic aromatic compounds containing an isobenzofuran moiety. (6r,7r)-3-butylidene-6,7-dihydroxy-4,5,6,7-tetrahydro-2-benzofuran-1-one is found in Angelica acutiloba, Angelica sinensis, Cnidium officinale, Levisticum officinale, Ligusticum chuanxiong and Ligusticum sinense. (6r,7r)-3-butylidene-6,7-dihydroxy-4,5,6,7-tetrahydro-2-benzofuran-1-one was first documented in 2021 (PMID: 34951246). Based on a literature review a small amount of articles have been published on senkyunolide I (PMID: 35463086) (PMID: 34857480) (PMID: 35868043) (PMID: 35677958).

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 32 33  0  0  0  0  0  0  0  0999 V2000
   -5.0397   -0.6389   -0.8741 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5881   -0.3210   -1.1506 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9949    0.4221    0.0297 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5733    0.7069   -0.2971 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6208    0.2280    0.4757 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7565   -0.5472    1.6147 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.5121   -0.8417    2.1354 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7922   -1.5205    3.1594 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.4604   -0.1939    1.2394 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7912    0.4238    0.2801 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5785    1.1655   -0.7657 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6030    0.1711   -1.2861 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.3573   -0.5198   -0.2070 C   0  0  1  0  0  0  0  0  0  0  0  0
    4.7448   -0.2924   -0.2924 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.9440   -0.0892    1.1836 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.5610   -0.8770    2.1321 O   0  0  0  0  0  0  0  0  0  0  0  0
   -5.6357    0.2057   -1.2503 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.2174   -0.7072    0.2184 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.2803   -1.5741   -1.3887 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4759    0.3155   -2.0541 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0224   -1.2706   -1.2521 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0583   -0.2489    0.9156 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5610    1.3422    0.2632 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3669    1.2943   -1.1532 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0306    2.0391   -0.2899 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.9313    1.4282   -1.6240 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0154   -0.6174   -1.8388 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.2901    0.6186   -2.0172 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.2487   -1.6429   -0.2320 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.9546    0.6327   -0.0127 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.1979    0.9938    1.3121 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.1777   -0.6745    3.0265 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3  4  1  0
  4  5  2  0
  5  6  1  0
  6  7  1  0
  7  8  2  0
  7  9  1  0
  9 10  2  0
 10 11  1  0
 11 12  1  0
 12 13  1  0
 13 14  1  0
 13 15  1  0
 15 16  1  0
 10  5  1  0
 15  9  1  0
  1 17  1  0
  1 18  1  0
  1 19  1  0
  2 20  1  0
  2 21  1  0
  3 22  1  0
  3 23  1  0
  4 24  1  0
 11 25  1  0
 11 26  1  0
 12 27  1  0
 12 28  1  0
 13 29  1  1
 14 30  1  0
 15 31  1  1
 16 32  1  0
M  END


  Mrv1652309012223242D          

 16 17  0  0  1  0            999 V2000
   -2.2673    1.8818    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4604    1.7103    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2054    0.9256    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3984    0.7541    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1435   -0.0305    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6284   -0.6979    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1435   -1.3654    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3984   -2.1500    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.6411   -1.1104    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.6411   -0.2854    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3556    0.1271    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0701   -0.2854    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0701   -1.1104    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.7845   -1.5229    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.3556   -1.5229    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.3556   -2.3479    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
  4  3  1  4  0  0  0
  4  5  2  0  0  0  0
  5  6  1  0  0  0  0
  6  7  1  0  0  0  0
  7  8  2  0  0  0  0
  7  9  1  0  0  0  0
  9 10  2  0  0  0  0
  5 10  1  0  0  0  0
 10 11  1  0  0  0  0
 11 12  1  0  0  0  0
 12 13  1  0  0  0  0
 13 14  1  1  0  0  0
 13 15  1  0  0  0  0
  9 15  1  0  0  0  0
 15 16  1  6  0  0  0
M  END
> <DATABASE_ID>
NP0142790

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CCCC=C1OC(=O)C2=C1CC[C@@H](O)[C@@H]2O

> <INCHI_IDENTIFIER>
InChI=1S/C12H16O4/c1-2-3-4-9-7-5-6-8(13)11(14)10(7)12(15)16-9/h4,8,11,13-14H,2-3,5-6H2,1H3/t8-,11+/m1/s1

> <INCHI_KEY>
DQNGMIQSXNGHOA-KCJUWKMLSA-N

> <FORMULA>
C12H16O4

> <MOLECULAR_WEIGHT>
224.256

> <EXACT_MASS>
224.104858995

> <JCHEM_ACCEPTOR_COUNT>
3

> <JCHEM_ATOM_COUNT>
32

> <JCHEM_AVERAGE_POLARIZABILITY>
24.026491405632584

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(6R,7R)-3-butylidene-6,7-dihydroxy-1,3,4,5,6,7-hexahydro-2-benzofuran-1-one

> <ALOGPS_LOGP>
1.20

> <JCHEM_LOGP>
0.7912022496666669

> <ALOGPS_LOGS>
-1.55

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
15.00799082307816

> <JCHEM_PKA_STRONGEST_ACIDIC>
13.228125607865369

> <JCHEM_PKA_STRONGEST_BASIC>
-3.1886830578134164

> <JCHEM_POLAR_SURFACE_AREA>
66.76

> <JCHEM_REFRACTIVITY>
59.801500000000004

> <JCHEM_ROTATABLE_BOND_COUNT>
2

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
6.30e+00 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(6R,7R)-3-butylidene-6,7-dihydroxy-4,5,6,7-tetrahydro-2-benzofuran-1-one

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 01-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   01-SEP-22         0                                  
HETATM    1  C   UNK     0      -4.232   3.513   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      -2.726   3.192   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      -2.250   1.728   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      -0.744   1.408   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      -0.268  -0.057   0.000  0.00  0.00           C+0
HETATM    6  O   UNK     0      -1.173  -1.303   0.000  0.00  0.00           O+0
HETATM    7  C   UNK     0      -0.268  -2.549   0.000  0.00  0.00           C+0
HETATM    8  O   UNK     0      -0.744  -4.013   0.000  0.00  0.00           O+0
HETATM    9  C   UNK     0       1.197  -2.073   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       1.197  -0.533   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       2.530   0.237   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       3.864  -0.533   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       3.864  -2.073   0.000  0.00  0.00           C+0
HETATM   14  O   UNK     0       5.198  -2.843   0.000  0.00  0.00           O+0
HETATM   15  C   UNK     0       2.530  -2.843   0.000  0.00  0.00           C+0
HETATM   16  O   UNK     0       2.530  -4.383   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3                                                       
CONECT    3    2    4                                                       
CONECT    4    3    5                                                       
CONECT    5    4    6   10                                                  
CONECT    6    5    7                                                       
CONECT    7    6    8    9                                                  
CONECT    8    7                                                            
CONECT    9    7   10   15                                                  
CONECT   10    9    5   11                                                  
CONECT   11   10   12                                                       
CONECT   12   11   13                                                       
CONECT   13   12   14   15                                                  
CONECT   14   13                                                            
CONECT   15   13    9   16                                                  
CONECT   16   15                                                            
MASTER        0    0    0    0    0    0    0    0   16    0   34    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₂H₁₆O₄

Average Mass

224.2560 Da

Monoisotopic Mass

224.10486 Da

IUPAC Name

(6R,7R)-3-butylidene-6,7-dihydroxy-1,3,4,5,6,7-hexahydro-2-benzofuran-1-one

Traditional Name

(6R,7R)-3-butylidene-6,7-dihydroxy-4,5,6,7-tetrahydro-2-benzofuran-1-one

CAS Registry Number

Not Available

SMILES

CCCC=C1OC(=O)C2=C1CC[C@@H](O)[C@@H]2O

InChI Identifier

InChI=1S/C12H16O4/c1-2-3-4-9-7-5-6-8(13)11(14)10(7)12(15)16-9/h4,8,11,13-14H,2-3,5-6H2,1H3/t8-,11+/m1/s1

InChI Key

DQNGMIQSXNGHOA-KCJUWKMLSA-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
Angelica acutiloba	LOTUS Database	35616633
Angelica sinensis	LOTUS Database	35616633
Cnidium officinale	LOTUS Database	35616633
Levisticum officinale	LOTUS Database	35616633
Ligusticum chuanxiong	LOTUS Database	35616633
Ligusticum sinense	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as isobenzofurans. These are organic aromatic compounds containing an isobenzofuran moiety.

Kingdom

Organic compounds

Super Class

Organoheterocyclic compounds

Class

Isobenzofurans

Sub Class

Not Available

Direct Parent

Isobenzofurans

Alternative Parents

Substituents

Isobenzofuran
2-furanone
Alpha,beta-unsaturated carboxylic ester
Enoate ester
Enol ester
Dihydrofuran
Secondary alcohol
Lactone
Carboxylic acid ester
1,2-diol
Oxacycle
Monocarboxylic acid or derivatives
Carboxylic acid derivative
Organic oxygen compound
Organic oxide
Hydrocarbon derivative
Organooxygen compound
Carbonyl group
Alcohol
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
logP	1.2	ALOGPS
logP	0.79	ChemAxon
logS	-1.6	ALOGPS
pKa (Strongest Acidic)	13.23	ChemAxon
pKa (Strongest Basic)	-3.2	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	3	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	66.76 Å²	ChemAxon
Rotatable Bond Count	2	ChemAxon
Refractivity	59.8 m³·mol⁻¹	ChemAxon
Polarizability	24.03 Å³	ChemAxon
Number of Rings	2	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

C00035161

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

131954670

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Chang N, Wang Y, Jiang M, Bai G: Integrated Network Pharmacology and UPLC/Q-TOF-MS Screen System to Exploring Anti-Inflammatory Active Components and Mechanism of Shunaoxin Pills. Evid Based Complement Alternat Med. 2022 Apr 14;2022:2868767. doi: 10.1155/2022/2868767. eCollection 2022. [PubMed:35463086 ]
Lu CN, Ye X, Liu XQ, Feng WH, Liang YH, Li C, Wang ZM: [Content determination and transferring rules of seven components in Angelicae Sinensis Radix and its processed products]. Zhongguo Zhong Yao Za Zhi. 2021 Dec;46(23):6196-6203. doi: 10.19540/j.cnki.cjcmm.20210727.201. [PubMed:34951246 ]
Zhu YL, Huang J, Chen XY, Xie J, Yang Q, Wang JF, Deng XM: Senkyunolide I alleviates renal Ischemia-Reperfusion injury by inhibiting oxidative stress, endoplasmic reticulum stress and apoptosis. Int Immunopharmacol. 2022 Jan;102:108393. doi: 10.1016/j.intimp.2021.108393. Epub 2021 Nov 30. [PubMed:34857480 ]
Gu Y, Huang P, Cheng T, Yang J, Wu G, Sun Y, Liu A, Li H, Zhao J, Ye J: A multiomics and network pharmacological study reveals the neuroprotective efficacy of Fu-Fang-Dan-Zhi tablets against glutamate-induced oxidative cell death. Comput Biol Med. 2022 Sep;148:105873. doi: 10.1016/j.compbiomed.2022.105873. Epub 2022 Jul 16. [PubMed:35868043 ]
Zhang K, Shen X, Yang L, Chen Q, Wang N, Li Y, Song P, Jiang M, Bai G, Yang P, Yang Z: Exploring the Q-markers of Angelica sinensis (Oliv.) Diels of anti-platelet aggregation activity based on spectrum-effect relationships. Biomed Chromatogr. 2022 Sep;36(9):e5422. doi: 10.1002/bmc.5422. Epub 2022 Jun 15. [PubMed:35677958 ]
LOTUS database [Link]

Showing NP-Card for (6r,7r)-3-butylidene-6,7-dihydroxy-4,5,6,7-tetrahydro-2-benzofuran-1-one (NP0142790)

MOL for NP0142790 ((6r,7r)-3-butylidene-6,7-dihydroxy-4,5,6,7-tetrahydro-2-benzofuran-1-one)

3D MOL for NP0142790 ((6r,7r)-3-butylidene-6,7-dihydroxy-4,5,6,7-tetrahydro-2-benzofuran-1-one)

3D SDF for NP0142790 ((6r,7r)-3-butylidene-6,7-dihydroxy-4,5,6,7-tetrahydro-2-benzofuran-1-one)

3D-SDF for NP0142790 ((6r,7r)-3-butylidene-6,7-dihydroxy-4,5,6,7-tetrahydro-2-benzofuran-1-one)

PDB for NP0142790 ((6r,7r)-3-butylidene-6,7-dihydroxy-4,5,6,7-tetrahydro-2-benzofuran-1-one)

3D PDB for NP0142790 ((6r,7r)-3-butylidene-6,7-dihydroxy-4,5,6,7-tetrahydro-2-benzofuran-1-one)

SMILES for NP0142790 ((6r,7r)-3-butylidene-6,7-dihydroxy-4,5,6,7-tetrahydro-2-benzofuran-1-one)

INCHI for NP0142790 ((6r,7r)-3-butylidene-6,7-dihydroxy-4,5,6,7-tetrahydro-2-benzofuran-1-one)

Structure for NP0142790 ((6r,7r)-3-butylidene-6,7-dihydroxy-4,5,6,7-tetrahydro-2-benzofuran-1-one)

3D Structure for NP0142790 ((6r,7r)-3-butylidene-6,7-dihydroxy-4,5,6,7-tetrahydro-2-benzofuran-1-one)