NP-MRD: Showing NP-Card for (2e,3r,4s,5z)-2-[(2e)-but-2-en-1-ylidene]-3,4-dihydroxyhept-5-enal (NP0329538)

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Record Information

Version

2.0

Created at

2022-09-12 14:01:13 UTC

Updated at

2022-09-12 14:01:13 UTC

NP-MRD ID

NP0329538

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(2e,3r,4s,5z)-2-[(2e)-but-2-en-1-ylidene]-3,4-dihydroxyhept-5-enal

Description

(2E,3R,4S,5Z)-2-[(2E)-but-2-en-1-ylidene]-3,4-dihydroxyhept-5-enal belongs to the class of organic compounds known as fatty alcohols. These are aliphatic alcohols consisting of a chain of a least six carbon atoms. (2e,3r,4s,5z)-2-[(2e)-but-2-en-1-ylidene]-3,4-dihydroxyhept-5-enal is found in Taxus brevifolia. Based on a literature review very few articles have been published on (2E,3R,4S,5Z)-2-[(2E)-but-2-en-1-ylidene]-3,4-dihydroxyhept-5-enal.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 30 29  0  0  0  0  0  0  0  0999 V2000
   -2.6841    0.9063   -1.0047 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1089    0.2355    0.2439 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3835   -0.7978    0.6752 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1996   -1.3107   -0.0017 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.4033   -2.6809   -0.2807 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.0584   -1.1237    0.8067 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.1559   -1.8470    2.0040 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.2652    0.3028    1.0885 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6327    1.0075    2.0405 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5128    2.2141    2.2775 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.2215    0.9620    0.4896 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1439    0.3710   -0.4508 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1095    1.1089   -1.0317 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.0774    0.5769   -1.9923 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0333    0.3690   -1.9012 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1760    1.9207   -1.0044 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5862    1.1224   -1.0249 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9687    0.5339    0.8227 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7034   -1.2966    1.5921 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0071   -0.8458   -0.9929 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0406   -2.7843   -1.0321 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.9150   -1.6352    0.3415 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5275   -2.7188    1.7514 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3891    0.4324    2.5181 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.2875    2.0383    0.7531 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1431   -0.6537   -0.7595 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.1504    2.1489   -0.7562 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.7715    0.7731   -3.0611 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.3325   -0.4830   -1.8569 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.0371    1.1537   -1.8672 H   0  0  0  0  0  0  0  0  0  0  0  0
 14 13  1  0
 13 12  2  0
 12 11  1  0
 11  8  2  0
  8  9  1  0
  9 10  2  0
  8  6  1  0
  6  7  1  0
  6  4  1  0
  4  5  1  0
  4  3  1  0
  3  2  2  0
  2  1  1  0
 14 28  1  0
 14 29  1  0
 14 30  1  0
 13 27  1  0
 12 26  1  0
 11 25  1  0
  9 24  1  0
  6 22  1  6
  7 23  1  0
  4 20  1  6
  5 21  1  0
  3 19  1  0
  2 18  1  0
  1 15  1  0
  1 16  1  0
  1 17  1  0
M  END


  Mrv1652309122216012D          

 14 13  0  0  1  0            999 V2000
    2.4750   -1.4289    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.3000   -1.4289    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7125   -0.7145    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.3000    0.0000    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.7125    0.7145    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.4750    0.0000    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.0625   -0.7145    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.0625    0.7145    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4750    1.4289    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0625    2.1434    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.2375    0.7145    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8250    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.0000    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4125   -0.7145    0.0000 C   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
  3  4  1  0  0  0  0
  4  5  1  1  0  0  0
  4  6  1  0  0  0  0
  6  7  1  6  0  0  0
  6  8  1  0  0  0  0
  8  9  1  0  0  0  0
  9 10  2  0  0  0  0
  8 11  2  0  0  0  0
 11 12  1  0  0  0  0
 12 13  2  0  0  0  0
 13 14  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0329538

> <DATABASE_NAME>
NP-MRD

> <SMILES>
C\C=C\C=C(\C=O)[C@@H](O)[C@@H](O)\C=C/C

> <INCHI_IDENTIFIER>
InChI=1S/C11H16O3/c1-3-5-7-9(8-12)11(14)10(13)6-4-2/h3-8,10-11,13-14H,1-2H3/b5-3+,6-4-,9-7-/t10-,11+/m0/s1

> <INCHI_KEY>
VPDVLNNSGPCYGT-DPCQOWFFSA-N

> <FORMULA>
C11H16O3

> <MOLECULAR_WEIGHT>
196.246

> <EXACT_MASS>
196.109944375

> <JCHEM_ACCEPTOR_COUNT>
3

> <JCHEM_ATOM_COUNT>
30

> <JCHEM_AVERAGE_POLARIZABILITY>
20.852126850589173

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(2E,3R,4S,5Z)-2-[(2E)-but-2-en-1-ylidene]-3,4-dihydroxyhept-5-enal

> <JCHEM_LOGP>
0.9502779870000004

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
0

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
14.743002763943398

> <JCHEM_PKA_STRONGEST_ACIDIC>
13.212470279690333

> <JCHEM_PKA_STRONGEST_BASIC>
-3.3406598085335446

> <JCHEM_POLAR_SURFACE_AREA>
57.53

> <JCHEM_REFRACTIVITY>
58.958800000000004

> <JCHEM_ROTATABLE_BOND_COUNT>
5

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
(2E,3R,4S,5Z)-2-[(2E)-but-2-en-1-ylidene]-3,4-dihydroxyhept-5-enal

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 12-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   12-SEP-22         0                                  
HETATM    1  C   UNK     0       4.620  -2.667   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       6.160  -2.667   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       6.930  -1.334   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       6.160   0.000   0.000  0.00  0.00           C+0
HETATM    5  O   UNK     0       6.930   1.334   0.000  0.00  0.00           O+0
HETATM    6  C   UNK     0       4.620   0.000   0.000  0.00  0.00           C+0
HETATM    7  O   UNK     0       3.850  -1.334   0.000  0.00  0.00           O+0
HETATM    8  C   UNK     0       3.850   1.334   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       4.620   2.667   0.000  0.00  0.00           C+0
HETATM   10  O   UNK     0       3.850   4.001   0.000  0.00  0.00           O+0
HETATM   11  C   UNK     0       2.310   1.334   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       1.540   0.000   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       0.000   0.000   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0      -0.770  -1.334   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3                                                       
CONECT    3    2    4                                                       
CONECT    4    3    5    6                                                  
CONECT    5    4                                                            
CONECT    6    4    7    8                                                  
CONECT    7    6                                                            
CONECT    8    6    9   11                                                  
CONECT    9    8   10                                                       
CONECT   10    9                                                            
CONECT   11    8   12                                                       
CONECT   12   11   13                                                       
CONECT   13   12   14                                                       
CONECT   14   13                                                            
MASTER        0    0    0    0    0    0    0    0   14    0   26    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₁H₁₆O₃

Average Mass

196.2460 Da

Monoisotopic Mass

196.10994 Da

IUPAC Name

(2E,3R,4S,5Z)-2-[(2E)-but-2-en-1-ylidene]-3,4-dihydroxyhept-5-enal

Traditional Name

(2E,3R,4S,5Z)-2-[(2E)-but-2-en-1-ylidene]-3,4-dihydroxyhept-5-enal

CAS Registry Number

Not Available

SMILES

C\C=C\C=C(\C=O)[C@@H](O)[C@@H](O)\C=C/C

InChI Identifier

InChI=1S/C11H16O3/c1-3-5-7-9(8-12)11(14)10(13)6-4-2/h3-8,10-11,13-14H,1-2H3/b5-3+,6-4-,9-7-/t10-,11+/m0/s1

InChI Key

VPDVLNNSGPCYGT-DPCQOWFFSA-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
Taxus brevifolia	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as fatty alcohols. These are aliphatic alcohols consisting of a chain of a least six carbon atoms.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Fatty Acyls

Sub Class

Fatty alcohols

Direct Parent

Fatty alcohols

Alternative Parents

Substituents

Fatty alcohol
Medium-chain aldehyde
Beta-hydroxy aldehyde
Enal
Alpha,beta-unsaturated aldehyde
Secondary alcohol
1,2-diol
Organic oxygen compound
Organic oxide
Hydrocarbon derivative
Organooxygen compound
Carbonyl group
Aldehyde
Alcohol
Aliphatic acyclic compound

Molecular Framework

Aliphatic acyclic 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	0.95	ChemAxon
pKa (Strongest Acidic)	13.21	ChemAxon
pKa (Strongest Basic)	-3.3	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	3	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	57.53 Å²	ChemAxon
Rotatable Bond Count	5	ChemAxon
Refractivity	58.96 m³·mol⁻¹	ChemAxon
Polarizability	20.85 Å³	ChemAxon
Number of Rings	0	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

Not Available

Chemspider ID

75178753

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

139583096

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for (2e,3r,4s,5z)-2-[(2e)-but-2-en-1-ylidene]-3,4-dihydroxyhept-5-enal (NP0329538)

MOL for NP0329538 ((2e,3r,4s,5z)-2-[(2e)-but-2-en-1-ylidene]-3,4-dihydroxyhept-5-enal)

3D MOL for NP0329538 ((2e,3r,4s,5z)-2-[(2e)-but-2-en-1-ylidene]-3,4-dihydroxyhept-5-enal)

3D SDF for NP0329538 ((2e,3r,4s,5z)-2-[(2e)-but-2-en-1-ylidene]-3,4-dihydroxyhept-5-enal)

3D-SDF for NP0329538 ((2e,3r,4s,5z)-2-[(2e)-but-2-en-1-ylidene]-3,4-dihydroxyhept-5-enal)

PDB for NP0329538 ((2e,3r,4s,5z)-2-[(2e)-but-2-en-1-ylidene]-3,4-dihydroxyhept-5-enal)

3D PDB for NP0329538 ((2e,3r,4s,5z)-2-[(2e)-but-2-en-1-ylidene]-3,4-dihydroxyhept-5-enal)

SMILES for NP0329538 ((2e,3r,4s,5z)-2-[(2e)-but-2-en-1-ylidene]-3,4-dihydroxyhept-5-enal)

INCHI for NP0329538 ((2e,3r,4s,5z)-2-[(2e)-but-2-en-1-ylidene]-3,4-dihydroxyhept-5-enal)

Structure for NP0329538 ((2e,3r,4s,5z)-2-[(2e)-but-2-en-1-ylidene]-3,4-dihydroxyhept-5-enal)

3D Structure for NP0329538 ((2e,3r,4s,5z)-2-[(2e)-but-2-en-1-ylidene]-3,4-dihydroxyhept-5-enal)