NP-MRD: Showing NP-Card for Aglaidithioduline (NP0076124)

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Record Information

Version

2.0

Created at

2022-04-28 21:17:38 UTC

Updated at

2022-04-28 21:17:38 UTC

NP-MRD ID

NP0076124

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Aglaidithioduline

Description

Aglaidithioduline belongs to the class of organic compounds known as vinylogous thioesters. These are organic compounds containing a thioester group, which is indirectly attached to a carbonyl via an intervening vinyl (>C=C<) moiety. Aglaidithioduline is found in Aglaia edulis . Aglaidithioduline was first documented in 1999 (PMID: 10643670). Based on a literature review very few articles have been published on Aglaidithioduline.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 38 37  0  0  0  0  0  0  0  0999 V2000
   -8.4174    1.2335   -0.1843 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.7625   -0.4801   -0.2076 S   0  0  0  0  0  0  0  0  0  0  0  0
   -6.0615   -0.3824   -0.7357 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.1401   -0.9671    0.0077 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7234   -0.9372   -0.3490 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4093   -0.3229   -1.4092 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7620   -1.5752    0.4717 N   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3559   -1.5748    0.1650 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7709   -0.2021    0.0957 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.6927   -0.2672   -0.2342 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5186   -1.0265    0.7685 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.8988   -1.0096    0.3353 N   0  0  0  0  0  0  0  0  0  0  0  0
    3.6783    0.1640    0.1629 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2319    1.3159    0.3778 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.0557    0.0256   -0.2827 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.8037    1.0938   -0.4518 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.4847    0.8843   -0.9982 S   0  0  0  0  0  0  0  0  0  0  0  0
    8.4694    2.2370   -0.2933 C   0  0  0  0  0  0  0  0  0  0  0  0
   -9.0614    1.4054   -1.0676 H   0  0  0  0  0  0  0  0  0  0  0  0
   -7.5851    1.9472   -0.0918 H   0  0  0  0  0  0  0  0  0  0  0  0
   -9.0587    1.3412    0.7121 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.8098    0.1371   -1.6293 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.4587   -1.4781    0.9020 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0863   -2.0631    1.3301 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8114   -2.1518    0.9392 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1979   -2.1331   -0.7857 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9515    0.3687    1.0095 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2488    0.3765   -0.7377 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.8472   -0.8148   -1.2133 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.1365    0.7422   -0.3553 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4038   -0.5688    1.7828 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.1974   -2.0721    0.8808 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.3524   -1.9415    0.1343 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.4813   -0.9328   -0.4787 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.4382    2.0881   -0.2726 H   0  0  0  0  0  0  0  0  0  0  0  0
    7.9442    3.2150   -0.3759 H   0  0  0  0  0  0  0  0  0  0  0  0
    9.4101    2.3299   -0.8654 H   0  0  0  0  0  0  0  0  0  0  0  0
    8.6276    1.9957    0.7775 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  3  4  2  0
  4  5  1  0
  5  6  2  0
  5  7  1  0
  7  8  1  0
  8  9  1  0
  9 10  1  0
 10 11  1  0
 11 12  1  0
 12 13  1  0
 13 14  2  0
 13 15  1  0
 15 16  2  0
 16 17  1  0
 17 18  1  0
  1 19  1  0
  1 20  1  0
  1 21  1  0
  3 22  1  0
  4 23  1  0
  7 24  1  0
  8 25  1  0
  8 26  1  0
  9 27  1  0
  9 28  1  0
 10 29  1  0
 10 30  1  0
 11 31  1  0
 11 32  1  0
 12 33  1  0
 15 34  1  0
 16 35  1  0
 18 36  1  0
 18 37  1  0
 18 38  1  0
M  END


  Mrv1652304282223172D          

 18 17  0  0  0  0            999 V2000
    0.8546    2.1434    0.0000 S   0  0  0  0  0  0  0  0  0  0  0  0
    1.5691    2.5559    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2836    2.1434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9980    2.5559    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9980    3.3809    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.7125    2.1434    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    4.4270    2.5559    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.1414    2.1434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.8559    2.5559    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.5704    2.1434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.2849    2.5559    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    7.9993    2.1434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.9993    1.3184    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    8.7138    2.5559    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    9.4283    2.1434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   10.1427    2.5559    0.0000 S   0  0  0  0  0  0  0  0  0  0  0  0
   10.8572    2.1434    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8546    1.3184    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  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
  8  9  1  0  0  0  0
  9 10  1  0  0  0  0
 10 11  1  0  0  0  0
 11 12  1  0  0  0  0
 12 13  2  0  0  0  0
 12 14  1  0  0  0  0
 14 15  2  0  0  0  0
 15 16  1  0  0  0  0
 16 17  1  0  0  0  0
  1 18  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0076124

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CS\C=C\C(=O)NCCCCNC(=O)\C=C\SC

> <INCHI_IDENTIFIER>
InChI=1S/C12H20N2O2S2/c1-17-9-5-11(15)13-7-3-4-8-14-12(16)6-10-18-2/h5-6,9-10H,3-4,7-8H2,1-2H3,(H,13,15)(H,14,16)/b9-5+,10-6+

> <INCHI_KEY>
SOZZFXSEKXBXFS-NXZHAISVSA-N

> <FORMULA>
C12H20N2O2S2

> <MOLECULAR_WEIGHT>
288.42

> <EXACT_MASS>
288.09662024

> <JCHEM_ACCEPTOR_COUNT>
2

> <JCHEM_ATOM_COUNT>
38

> <JCHEM_AVERAGE_POLARIZABILITY>
32.273927344633314

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(2E)-3-(methylsulfanyl)-N-{4-[(2E)-3-(methylsulfanyl)prop-2-enamido]butyl}prop-2-enamide

> <ALOGPS_LOGP>
1.35

> <JCHEM_LOGP>
0.7719712140000012

> <ALOGPS_LOGS>
-3.18

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
0

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
15.905695197106922

> <JCHEM_PKA_STRONGEST_ACIDIC>
15.406252761959912

> <JCHEM_PKA_STRONGEST_BASIC>
-0.0522868772681776

> <JCHEM_POLAR_SURFACE_AREA>
58.2

> <JCHEM_REFRACTIVITY>
81.2598

> <JCHEM_ROTATABLE_BOND_COUNT>
9

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
1.92e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(2E)-3-(methylsulfanyl)-N-{4-[(2E)-3-(methylsulfanyl)prop-2-enamido]butyl}prop-2-enamide

> <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  S   UNK     0       1.595   4.001   0.000  0.00  0.00           S+0
HETATM    2  C   UNK     0       2.929   4.771   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       4.263   4.001   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       5.596   4.771   0.000  0.00  0.00           C+0
HETATM    5  O   UNK     0       5.596   6.311   0.000  0.00  0.00           O+0
HETATM    6  N   UNK     0       6.930   4.001   0.000  0.00  0.00           N+0
HETATM    7  C   UNK     0       8.264   4.771   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       9.597   4.001   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0      10.931   4.771   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0      12.265   4.001   0.000  0.00  0.00           C+0
HETATM   11  N   UNK     0      13.598   4.771   0.000  0.00  0.00           N+0
HETATM   12  C   UNK     0      14.932   4.001   0.000  0.00  0.00           C+0
HETATM   13  O   UNK     0      14.932   2.461   0.000  0.00  0.00           O+0
HETATM   14  C   UNK     0      16.266   4.771   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0      17.599   4.001   0.000  0.00  0.00           C+0
HETATM   16  S   UNK     0      18.933   4.771   0.000  0.00  0.00           S+0
HETATM   17  C   UNK     0      20.267   4.001   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       1.595   2.461   0.000  0.00  0.00           C+0
CONECT    1    2   18                                                       
CONECT    2    1    3                                                       
CONECT    3    2    4                                                       
CONECT    4    3    5    6                                                  
CONECT    5    4                                                            
CONECT    6    4    7                                                       
CONECT    7    6    8                                                       
CONECT    8    7    9                                                       
CONECT    9    8   10                                                       
CONECT   10    9   11                                                       
CONECT   11   10   12                                                       
CONECT   12   11   13   14                                                  
CONECT   13   12                                                            
CONECT   14   12   15                                                       
CONECT   15   14   16                                                       
CONECT   16   15   17                                                       
CONECT   17   16                                                            
CONECT   18    1                                                            
MASTER        0    0    0    0    0    0    0    0   18    0   34    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₂H₂₀N₂O₂S₂

Average Mass

288.4200 Da

Monoisotopic Mass

288.09662 Da

IUPAC Name

(2E)-3-(methylsulfanyl)-N-{4-[(2E)-3-(methylsulfanyl)prop-2-enamido]butyl}prop-2-enamide

Traditional Name

(2E)-3-(methylsulfanyl)-N-{4-[(2E)-3-(methylsulfanyl)prop-2-enamido]butyl}prop-2-enamide

CAS Registry Number

Not Available

SMILES

CS\C=C\C(=O)NCCCCNC(=O)\C=C\SC

InChI Identifier

InChI=1S/C12H20N2O2S2/c1-17-9-5-11(15)13-7-3-4-8-14-12(16)6-10-18-2/h5-6,9-10H,3-4,7-8H2,1-2H3,(H,13,15)(H,14,16)/b9-5+,10-6+

InChI Key

SOZZFXSEKXBXFS-NXZHAISVSA-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
Aglaia edulis	Plant	KNApSAcK

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as vinylogous thioesters. These are organic compounds containing a thioester group, which is indirectly attached to a carbonyl via an intervening vinyl (>C=C<) moiety.

Kingdom

Organic compounds

Super Class

Organic acids and derivatives

Class

Vinylogous thioesters

Sub Class

Not Available

Direct Parent

Vinylogous thioesters

Alternative Parents

Substituents

Vinylogous thioester
Acrylic acid or derivatives
Carboxamide group
Secondary carboxylic acid amide
Thioenolether
Carboxylic acid derivative
Sulfenyl compound
Carbonyl group
Hydrocarbon derivative
Organic oxide
Organosulfur compound
Organooxygen compound
Organonitrogen compound
Organic oxygen compound
Organic nitrogen compound
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	1.35	ALOGPS
logP	0.77	ChemAxon
logS	-3.2	ALOGPS
pKa (Strongest Acidic)	15.41	ChemAxon
pKa (Strongest Basic)	-0.052	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	2	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	58.2 Å²	ChemAxon
Rotatable Bond Count	9	ChemAxon
Refractivity	81.26 m³·mol⁻¹	ChemAxon
Polarizability	32.27 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

C00038385

Chemspider ID

8441620

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

10266141

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Saifah E, Suttisri R, Shamsub S, Pengsuparp T, Lipipun V: Bisamides from Aglaia edulis. Phytochemistry. 1999 Nov;52(6):1085-8. doi: 10.1016/s0031-9422(99)00378-7. [PubMed:10643670 ]

Showing NP-Card for Aglaidithioduline (NP0076124)

MOL for NP0076124 (Aglaidithioduline)

3D MOL for NP0076124 (Aglaidithioduline)

3D SDF for NP0076124 (Aglaidithioduline)

3D-SDF for NP0076124 (Aglaidithioduline)

PDB for NP0076124 (Aglaidithioduline)

3D PDB for NP0076124 (Aglaidithioduline)

SMILES for NP0076124 (Aglaidithioduline)

INCHI for NP0076124 (Aglaidithioduline)

Structure for NP0076124 (Aglaidithioduline)

3D Structure for NP0076124 (Aglaidithioduline)