NP-MRD: Showing NP-Card for Jioglutin C (NP0057574)

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Record Information

Version

1.0

Created at

2022-04-28 02:59:38 UTC

Updated at

2022-04-28 02:59:38 UTC

NP-MRD ID

NP0057574

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Jioglutin C

Description

(1S,4S,5R,6S,7R,9S,11S)-9-methoxy-2,10-dioxatricyclo[5.3.1.0⁴,¹¹]Undecane-4,5,6-triol belongs to the class of organic compounds known as iridoids and derivatives. These are monoterpenes containing a skeleton structurally characterized by the presence of a cylopentane fused to a pyran ( forming a 4,7-dimethylcyclopenta[c]pyran), or a derivative where the pentane moiety is open. Jioglutin C is found in Ailanthus integrifolia and Rehmannia glutinosa . It was first documented in 2000 (PMID: 35476376). Based on a literature review a significant number of articles have been published on (1S,4S,5R,6S,7R,9S,11S)-9-methoxy-2,10-dioxatricyclo[5.3.1.0⁴,¹¹]Undecane-4,5,6-triol (PMID: 35477185) (PMID: 35477184) (PMID: 35477183) (PMID: 35477182).

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 32 34  0  0  0  0  0  0  0  0999 V2000
    4.2529    0.1483   -0.1107 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.0042    0.1681   -0.7744 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.9565   -0.0303    0.1206 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.2327   -1.3161   -0.1834 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2528   -1.1520   -0.2464 C   0  0  1  0  0  0  0  0  0  0  0  0
   -0.8976   -0.8228    1.0559 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.9634   -1.9029    1.9283 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2961   -0.4395    0.5623 C   0  0  1  0  0  0  0  0  0  0  0  0
   -3.0489    0.1330    1.5718 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9814    0.4839   -0.5664 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.9597    0.4015   -1.5605 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7525    1.9014   -0.1728 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5397    2.3092   -0.6573 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.2611    1.2094   -0.8584 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.1100    1.0622    0.1939 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6403    0.0300   -1.1074 C   0  0  1  0  0  0  0  0  0  0  0  0
    4.3380   -0.8690    0.3728 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.0563    0.2427   -0.8541 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.2853    0.8869    0.6966 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.4109   -0.1507    1.1266 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4762   -2.1217    0.5389 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5694   -1.6651   -1.1815 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7091   -2.0708   -0.6400 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4998    0.0653    1.5636 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6574   -1.6057    2.8218 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7468   -1.3646    0.1599 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6779   -0.5795    1.8946 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0463    1.2867   -1.9885 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5378    2.5492   -0.6625 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8899    2.0927    0.9244 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.8446    1.3807   -1.8024 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7008   -0.2608   -2.1653 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  1  0
  5  6  1  0
  6  7  1  0
  6  8  1  0
  8  9  1  0
  8 10  1  0
 10 11  1  6
 10 12  1  0
 12 13  1  0
 13 14  1  0
 14 15  1  0
 14 16  1  0
 15  3  1  0
 16  5  1  0
 16 10  1  0
  1 17  1  0
  1 18  1  0
  1 19  1  0
  3 20  1  1
  4 21  1  0
  4 22  1  0
  5 23  1  6
  6 24  1  1
  7 25  1  0
  8 26  1  6
  9 27  1  0
 11 28  1  0
 12 29  1  0
 12 30  1  0
 14 31  1  6
 16 32  1  6
M  END


  Mrv1652304282204592D          

 16 18  0  0  1  0            999 V2000
    2.1559    0.2553    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.0025   -0.5554    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.6278   -1.0935    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.4065   -0.8210    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.5599   -0.0103    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.9345    0.5278    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.3386    0.2622    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.9639   -0.2760    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.3093   -1.8545    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.4871   -1.7867    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2975   -0.9838    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.6721   -0.4457    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.9907    0.3153    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.5514    1.0137    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1308   -0.6353    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.5925   -1.4123    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  2  1  1  6  0  0  0
  2  3  1  0  0  0  0
  3  4  1  0  0  0  0
  4  5  1  0  0  0  0
  5  6  1  0  0  0  0
  1  6  1  6  0  0  0
  5  7  1  1  0  0  0
  7  8  1  0  0  0  0
  3  9  1  6  0  0  0
  9 10  1  0  0  0  0
 10 11  1  0  0  0  0
  2 11  1  0  0  0  0
 11 12  1  0  0  0  0
 12 13  1  0  0  0  0
  1 13  1  0  0  0  0
 13 14  1  1  0  0  0
 12 15  1  6  0  0  0
 11 16  1  1  0  0  0
M  END
> <DATABASE_ID>
NP0057574

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CO[C@@H]1C[C@H]2[C@H](O)[C@@H](O)[C@@]3(O)CO[C@@H](O1)[C@@H]23

> <INCHI_IDENTIFIER>
InChI=1S/C10H16O6/c1-14-5-2-4-6-9(16-5)15-3-10(6,13)8(12)7(4)11/h4-9,11-13H,2-3H2,1H3/t4-,5+,6-,7+,8-,9+,10-/m1/s1

> <INCHI_KEY>
LVAWHTOAFSCIIW-NEYBOIOJSA-N

> <FORMULA>
C10H16O6

> <MOLECULAR_WEIGHT>
232.232

> <EXACT_MASS>
232.094688235

> <JCHEM_ACCEPTOR_COUNT>
6

> <JCHEM_ATOM_COUNT>
32

> <JCHEM_AVERAGE_POLARIZABILITY>
22.27739649201871

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(1S,4S,5R,6S,7R,9S,11S)-9-methoxy-2,10-dioxatricyclo[5.3.1.0^{4,11}]undecane-4,5,6-triol

> <ALOGPS_LOGP>
-1.35

> <JCHEM_LOGP>
-1.6227459129999997

> <ALOGPS_LOGS>
0.57

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
13.701626067827103

> <JCHEM_PKA_STRONGEST_ACIDIC>
12.4528937586905

> <JCHEM_PKA_STRONGEST_BASIC>
-3.3078682757703657

> <JCHEM_POLAR_SURFACE_AREA>
88.38000000000001

> <JCHEM_REFRACTIVITY>
50.57659999999999

> <JCHEM_ROTATABLE_BOND_COUNT>
1

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
8.73e+02 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(1S,4S,5R,6S,7R,9S,11S)-9-methoxy-2,10-dioxatricyclo[5.3.1.0^{4,11}]undecane-4,5,6-triol

> <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  C   UNK     0       4.024   0.477   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       3.738  -1.037   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       4.905  -2.041   0.000  0.00  0.00           C+0
HETATM    4  O   UNK     0       6.359  -1.532   0.000  0.00  0.00           O+0
HETATM    5  C   UNK     0       6.645  -0.019   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       5.478   0.985   0.000  0.00  0.00           C+0
HETATM    7  O   UNK     0       8.099   0.489   0.000  0.00  0.00           O+0
HETATM    8  C   UNK     0       9.266  -0.515   0.000  0.00  0.00           C+0
HETATM    9  O   UNK     0       4.311  -3.462   0.000  0.00  0.00           O+0
HETATM   10  C   UNK     0       2.776  -3.335   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       2.422  -1.836   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       1.255  -0.832   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       1.849   0.589   0.000  0.00  0.00           C+0
HETATM   14  O   UNK     0       1.029   1.892   0.000  0.00  0.00           O+0
HETATM   15  O   UNK     0      -0.244  -1.186   0.000  0.00  0.00           O+0
HETATM   16  O   UNK     0       1.106  -2.636   0.000  0.00  0.00           O+0
CONECT    1    2    6   13                                                  
CONECT    2    1    3   11                                                  
CONECT    3    2    4    9                                                  
CONECT    4    3    5                                                       
CONECT    5    4    6    7                                                  
CONECT    6    5    1                                                       
CONECT    7    5    8                                                       
CONECT    8    7                                                            
CONECT    9    3   10                                                       
CONECT   10    9   11                                                       
CONECT   11   10    2   12   16                                             
CONECT   12   11   13   15                                                  
CONECT   13   12    1   14                                                  
CONECT   14   13                                                            
CONECT   15   12                                                            
CONECT   16   11                                                            
MASTER        0    0    0    0    0    0    0    0   16    0   36    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₀H₁₆O₆

Average Mass

232.2320 Da

Monoisotopic Mass

232.09469 Da

IUPAC Name

(1S,4S,5R,6S,7R,9S,11S)-9-methoxy-2,10-dioxatricyclo[5.3.1.0^{4,11}]undecane-4,5,6-triol

Traditional Name

(1S,4S,5R,6S,7R,9S,11S)-9-methoxy-2,10-dioxatricyclo[5.3.1.0^{4,11}]undecane-4,5,6-triol

CAS Registry Number

Not Available

SMILES

CO[C@@H]1C[C@H]2[C@H](O)[C@@H](O)[C@@]3(O)CO[C@@H](O1)[C@@H]23

InChI Identifier

InChI=1S/C10H16O6/c1-14-5-2-4-6-9(16-5)15-3-10(6,13)8(12)7(4)11/h4-9,11-13H,2-3H2,1H3/t4-,5+,6-,7+,8-,9+,10-/m1/s1

InChI Key

LVAWHTOAFSCIIW-NEYBOIOJSA-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
Ailanthus integrifolia	Plant	KNApSAcK
Rehmannia glutinosa	Plant	KNApSAcK

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as iridoids and derivatives. These are monoterpenes containing a skeleton structurally characterized by the presence of a cylopentane fused to a pyran ( forming a 4,7-dimethylcyclopenta[c]pyran), or a derivative where the pentane moiety is open.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Prenol lipids

Sub Class

Monoterpenoids

Direct Parent

Iridoids and derivatives

Alternative Parents

Substituents

Iridoid-skeleton
Furopyran
Oxane
Pyran
Cyclic alcohol
Furan
Tertiary alcohol
Tetrahydrofuran
Secondary alcohol
Polyol
Oxacycle
Organoheterocyclic compound
Acetal
Organooxygen compound
Hydrocarbon derivative
Organic oxygen compound
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	-1.4	ALOGPS
logP	-1.6	ChemAxon
logS	0.57	ALOGPS
pKa (Strongest Acidic)	12.45	ChemAxon
pKa (Strongest Basic)	-3.3	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	6	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	88.38 Å²	ChemAxon
Rotatable Bond Count	1	ChemAxon
Refractivity	50.58 m³·mol⁻¹	ChemAxon
Polarizability	22.28 Å³	ChemAxon
Number of Rings	3	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	No	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

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

14413755

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Nagendra L, Boro H, Mannar V: Bacterial Infections in Diabetes. 2000. [PubMed:35476376 ]
Mungmunpuntipantip R, Wiwanitkit V: Antineutrophil cytoplasmic antibody, glomerulonephritis and inactivated SARS-CoV-2 vaccine: comment on the article by Garcia et al. ACR Open Rheumatol. 2022 Apr 27. doi: 10.1002/acr2.11438. [PubMed:35477185 ]
Zhang J, Bellocco R, Sandborgh-Englund G, Yu J, Sallberg Chen M, Ye W: Poor oral health and esophageal cancer risk: a nationwide cohort study. Cancer Epidemiol Biomarkers Prev. 2022 Apr 27. pii: 694791. doi: 10.1158/1055-9965.EPI-22-0151. [PubMed:35477184 ]
Silva TCD, Santos WAD, Pinto SAG, Rocha PRD, Hurtado ECP, Bonamin LV: Phenotypic Changes in Mammary Adenocarcinoma (4T1) cells In Vitro after Treatment with Carcinosinum. Homeopathy. 2022 Apr 27. doi: 10.1055/s-0041-1740967. [PubMed:35477183 ]
Mukherjee S, Bandlamudi C, Hellmann MD, Kemel Y, Drill E, Rizvi H, Tkachuk K, Khurram A, Walsh MF, Zauderer MG, Mandelker D, Topka S, Zehir A, Srinivasan P, Esai Selvan M, Carlo MI, Cadoo KA, Latham A, Hamilton JG, Liu YL, Lipkin SM, Belhadj S, Bond GL, Gumus ZH, Klein RJ, Ladanyi M, Solit DB, Robson ME, Jones DR, Kris MG, Vijai J, Stadler ZK, Amos CI, Taylor BS, Berger MF, Rudin CM, Offit K: Germline Pathogenic Variants Impact Clinicopathology of Advanced Lung Cancer. Cancer Epidemiol Biomarkers Prev. 2022 Apr 27. pii: 694787. doi: 10.1158/1055-9965.EPI-21-1287. [PubMed:35477182 ]

Showing NP-Card for Jioglutin C (NP0057574)

MOL for NP0057574 (Jioglutin C)

3D MOL for NP0057574 (Jioglutin C)

3D SDF for NP0057574 (Jioglutin C)

3D-SDF for NP0057574 (Jioglutin C)

PDB for NP0057574 (Jioglutin C)

3D PDB for NP0057574 (Jioglutin C)

SMILES for NP0057574 (Jioglutin C)

INCHI for NP0057574 (Jioglutin C)

Structure for NP0057574 (Jioglutin C)

3D Structure for NP0057574 (Jioglutin C)