NP-MRD: Showing NP-Card for (3s,5s,6as,6bs,9r,11as,11bs)-3,5,9-trihydroxy-9-[(1r)-1-[(2s,3r,5s)-3-hydroxy-5-methylpiperidin-2-yl]ethyl]-10,11b-dimethyl-1h,2h,3h,4h,4ah,5h,6h,6ah,6bh,7h,8h,11ah-cyclohexa[a]fluoren-11-one (NP0287403)

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Record Information

Version

2.0

Created at

2022-09-09 16:27:46 UTC

Updated at

2022-09-09 16:27:46 UTC

NP-MRD ID

NP0287403

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(3s,5s,6as,6bs,9r,11as,11bs)-3,5,9-trihydroxy-9-[(1r)-1-[(2s,3r,5s)-3-hydroxy-5-methylpiperidin-2-yl]ethyl]-10,11b-dimethyl-1h,2h,3h,4h,4ah,5h,6h,6ah,6bh,7h,8h,11ah-cyclohexa[a]fluoren-11-one

Description

Veramanine belongs to the class of organic compounds known as piperidines. Piperidines are compounds containing a piperidine ring, which is a saturated aliphatic six-member ring with one nitrogen atom and five carbon atoms. (3s,5s,6as,6bs,9r,11as,11bs)-3,5,9-trihydroxy-9-[(1r)-1-[(2s,3r,5s)-3-hydroxy-5-methylpiperidin-2-yl]ethyl]-10,11b-dimethyl-1h,2h,3h,4h,4ah,5h,6h,6ah,6bh,7h,8h,11ah-cyclohexa[a]fluoren-11-one is found in Veratrum album. Based on a literature review very few articles have been published on Veramanine.

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1652309092218272D          

 33 37  0  0  1  0            999 V2000
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M  END

     RDKit          3D

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M  END


  Mrv1652309092218272D          

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 13 15  1  0  0  0  0
 15 16  1  0  0  0  0
 16 17  1  0  0  0  0
 11 17  1  0  0  0  0
  6 17  1  0  0  0  0
 17 18  1  1  0  0  0
  7 19  1  0  0  0  0
 19  3  1  1  0  0  0
 19 20  1  0  0  0  0
 20 21  1  0  0  0  0
 21 22  1  0  0  0  0
  2 22  1  0  0  0  0
 22 23  1  1  0  0  0
 22 24  1  6  0  0  0
 24 25  1  6  0  0  0
 26 24  1  6  0  0  0
 26 27  1  0  0  0  0
 27 28  1  0  0  0  0
 28 29  1  0  0  0  0
 29 30  1  1  0  0  0
 29 31  1  0  0  0  0
 31 32  1  0  0  0  0
 26 32  1  0  0  0  0
 32 33  1  1  0  0  0
M  END
> <DATABASE_ID>
NP0287403

> <DATABASE_NAME>
NP-MRD

> <SMILES>
C[C@H]([C@@H]1NC[C@@H](C)C[C@H]1O)[C@]1(O)CC[C@H]2[C@@H]3C[C@H](O)C4C[C@@H](O)CC[C@]4(C)[C@H]3C(=O)C2=C1C

> <INCHI_IDENTIFIER>
InChI=1S/C27H43NO5/c1-13-9-21(31)24(28-12-13)15(3)27(33)8-6-17-18-11-20(30)19-10-16(29)5-7-26(19,4)23(18)25(32)22(17)14(27)2/h13,15-21,23-24,28-31,33H,5-12H2,1-4H3/t13-,15+,16-,17-,18-,19?,20-,21+,23+,24-,26-,27-/m0/s1

> <INCHI_KEY>
IXQQMGUKHFWRLN-ZQJYAWKXSA-N

> <FORMULA>
C27H43NO5

> <MOLECULAR_WEIGHT>
461.643

> <EXACT_MASS>
461.314123489

> <JCHEM_ACCEPTOR_COUNT>
6

> <JCHEM_ATOM_COUNT>
76

> <JCHEM_AVERAGE_POLARIZABILITY>
52.49924822335283

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
5

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(1S,2S,5S,8S,10S,11S,14R)-5,8,14-trihydroxy-14-[(1R)-1-[(2S,3R,5S)-3-hydroxy-5-methylpiperidin-2-yl]ethyl]-2,15-dimethyltetracyclo[8.7.0.0^{2,7}.0^{11,16}]heptadec-15-en-17-one

> <JCHEM_LOGP>
1.3202615429999989

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
5

> <JCHEM_PHYSIOLOGICAL_CHARGE>
1

> <JCHEM_PKA>
14.451187350158413

> <JCHEM_PKA_STRONGEST_ACIDIC>
13.777478708893518

> <JCHEM_PKA_STRONGEST_BASIC>
9.77633254019754

> <JCHEM_POLAR_SURFACE_AREA>
110.02000000000001

> <JCHEM_REFRACTIVITY>
127.14079999999997

> <JCHEM_ROTATABLE_BOND_COUNT>
2

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
(1S,2S,5S,8S,10S,11S,14R)-5,8,14-trihydroxy-14-[(1R)-1-[(2S,3R,5S)-3-hydroxy-5-methylpiperidin-2-yl]ethyl]-2,15-dimethyltetracyclo[8.7.0.0^{2,7}.0^{11,16}]heptadec-15-en-17-one

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 09-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   09-SEP-22         0                                  
HETATM    1  C   UNK     0       6.851  -6.023   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       6.924  -4.485   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       8.293  -3.779   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       9.733  -4.324   0.000  0.00  0.00           C+0
HETATM    5  O   UNK     0      10.139  -5.810   0.000  0.00  0.00           O+0
HETATM    6  C   UNK     0      10.697  -3.123   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       9.852  -1.835   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      10.544  -0.460   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0      12.082  -0.372   0.000  0.00  0.00           C+0
HETATM   10  O   UNK     0      12.774   1.004   0.000  0.00  0.00           O+0
HETATM   11  C   UNK     0      12.927  -1.659   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0      14.464  -1.571   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0      15.309  -2.859   0.000  0.00  0.00           C+0
HETATM   14  O   UNK     0      16.846  -2.771   0.000  0.00  0.00           O+0
HETATM   15  C   UNK     0      14.616  -4.234   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0      13.079  -4.322   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0      12.234  -3.035   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0      11.541  -4.410   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       8.366  -2.241   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       7.070  -1.409   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0       5.702  -2.114   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0       5.628  -3.653   0.000  0.00  0.00           C+0
HETATM   23  O   UNK     0       4.089  -3.633   0.000  0.00  0.00           O+0
HETATM   24  C   UNK     0       4.751  -4.918   0.000  0.00  0.00           C+0
HETATM   25  C   UNK     0       5.409  -6.311   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0       3.216  -4.792   0.000  0.00  0.00           C+0
HETATM   27  N   UNK     0       2.339  -6.057   0.000  0.00  0.00           N+0
HETATM   28  C   UNK     0       0.804  -5.930   0.000  0.00  0.00           C+0
HETATM   29  C   UNK     0       0.147  -4.538   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0      -1.388  -4.411   0.000  0.00  0.00           C+0
HETATM   31  C   UNK     0       1.024  -3.272   0.000  0.00  0.00           C+0
HETATM   32  C   UNK     0       2.559  -3.399   0.000  0.00  0.00           C+0
HETATM   33  O   UNK     0       3.436  -2.133   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3   22                                                  
CONECT    3    2    4   19                                                  
CONECT    4    3    5    6                                                  
CONECT    5    4                                                            
CONECT    6    4    7   17                                                  
CONECT    7    6    8   19                                                  
CONECT    8    7    9                                                       
CONECT    9    8   10   11                                                  
CONECT   10    9                                                            
CONECT   11    9   12   17                                                  
CONECT   12   11   13                                                       
CONECT   13   12   14   15                                                  
CONECT   14   13                                                            
CONECT   15   13   16                                                       
CONECT   16   15   17                                                       
CONECT   17   16   11    6   18                                             
CONECT   18   17                                                            
CONECT   19    7    3   20                                                  
CONECT   20   19   21                                                       
CONECT   21   20   22                                                       
CONECT   22   21    2   23   24                                             
CONECT   23   22                                                            
CONECT   24   22   25   26                                                  
CONECT   25   24                                                            
CONECT   26   24   27   32                                                  
CONECT   27   26   28                                                       
CONECT   28   27   29                                                       
CONECT   29   28   30   31                                                  
CONECT   30   29                                                            
CONECT   31   29   32                                                       
CONECT   32   31   26   33                                                  
CONECT   33   32                                                            
MASTER        0    0    0    0    0    0    0    0   33    0   74    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₂₇H₄₃NO₅

Average Mass

461.6430 Da

Monoisotopic Mass

461.31412 Da

IUPAC Name

(1S,2S,5S,8S,10S,11S,14R)-5,8,14-trihydroxy-14-[(1R)-1-[(2S,3R,5S)-3-hydroxy-5-methylpiperidin-2-yl]ethyl]-2,15-dimethyltetracyclo[8.7.0.0^{2,7}.0^{11,16}]heptadec-15-en-17-one

Traditional Name

(1S,2S,5S,8S,10S,11S,14R)-5,8,14-trihydroxy-14-[(1R)-1-[(2S,3R,5S)-3-hydroxy-5-methylpiperidin-2-yl]ethyl]-2,15-dimethyltetracyclo[8.7.0.0^{2,7}.0^{11,16}]heptadec-15-en-17-one

CAS Registry Number

Not Available

SMILES

C[C@H]([C@@H]1NC[C@@H](C)C[C@H]1O)[C@]1(O)CC[C@H]2[C@@H]3C[C@H](O)C4C[C@@H](O)CC[C@]4(C)[C@H]3C(=O)C2=C1C

InChI Identifier

InChI=1S/C27H43NO5/c1-13-9-21(31)24(28-12-13)15(3)27(33)8-6-17-18-11-20(30)19-10-16(29)5-7-26(19,4)23(18)25(32)22(17)14(27)2/h13,15-21,23-24,28-31,33H,5-12H2,1-4H3/t13-,15+,16-,17-,18-,19?,20-,21+,23+,24-,26-,27-/m0/s1

InChI Key

IXQQMGUKHFWRLN-ZQJYAWKXSA-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
Veratrum album	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as piperidines. Piperidines are compounds containing a piperidine ring, which is a saturated aliphatic six-member ring with one nitrogen atom and five carbon atoms.

Kingdom

Organic compounds

Super Class

Organoheterocyclic compounds

Class

Piperidines

Sub Class

Not Available

Direct Parent

Piperidines

Alternative Parents

Substituents

Piperidine
Tertiary alcohol
Cyclic alcohol
1,3-aminoalcohol
Secondary alcohol
Ketone
1,2-aminoalcohol
Azacycle
Secondary amine
Polyol
Secondary aliphatic amine
Organic nitrogen compound
Organic oxygen compound
Organopnictogen compound
Organic oxide
Hydrocarbon derivative
Organooxygen compound
Organonitrogen compound
Carbonyl group
Amine
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	1.32	ChemAxon
pKa (Strongest Acidic)	13.78	ChemAxon
pKa (Strongest Basic)	9.78	ChemAxon
Physiological Charge	1	ChemAxon
Hydrogen Acceptor Count	6	ChemAxon
Hydrogen Donor Count	5	ChemAxon
Polar Surface Area	110.02 Å²	ChemAxon
Rotatable Bond Count	2	ChemAxon
Refractivity	127.14 m³·mol⁻¹	ChemAxon
Polarizability	52.5 Å³	ChemAxon
Number of Rings	5	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

C00029192

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

102247144

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

LOTUS database [Link]

Showing NP-Card for (3s,5s,6as,6bs,9r,11as,11bs)-3,5,9-trihydroxy-9-[(1r)-1-[(2s,3r,5s)-3-hydroxy-5-methylpiperidin-2-yl]ethyl]-10,11b-dimethyl-1h,2h,3h,4h,4ah,5h,6h,6ah,6bh,7h,8h,11ah-cyclohexa[a]fluoren-11-one (NP0287403)

MOL for NP0287403 ((3s,5s,6as,6bs,9r,11as,11bs)-3,5,9-trihydroxy-9-[(1r)-1-[(2s,3r,5s)-3-hydroxy-5-methylpiperidin-2-yl]ethyl]-10,11b-dimethyl-1h,2h,3h,4h,4ah,5h,6h,6ah,6bh,7h,8h,11ah-cyclohexa[a]fluoren-11-one)

3D MOL for NP0287403 ((3s,5s,6as,6bs,9r,11as,11bs)-3,5,9-trihydroxy-9-[(1r)-1-[(2s,3r,5s)-3-hydroxy-5-methylpiperidin-2-yl]ethyl]-10,11b-dimethyl-1h,2h,3h,4h,4ah,5h,6h,6ah,6bh,7h,8h,11ah-cyclohexa[a]fluoren-11-one)

3D SDF for NP0287403 ((3s,5s,6as,6bs,9r,11as,11bs)-3,5,9-trihydroxy-9-[(1r)-1-[(2s,3r,5s)-3-hydroxy-5-methylpiperidin-2-yl]ethyl]-10,11b-dimethyl-1h,2h,3h,4h,4ah,5h,6h,6ah,6bh,7h,8h,11ah-cyclohexa[a]fluoren-11-one)

3D-SDF for NP0287403 ((3s,5s,6as,6bs,9r,11as,11bs)-3,5,9-trihydroxy-9-[(1r)-1-[(2s,3r,5s)-3-hydroxy-5-methylpiperidin-2-yl]ethyl]-10,11b-dimethyl-1h,2h,3h,4h,4ah,5h,6h,6ah,6bh,7h,8h,11ah-cyclohexa[a]fluoren-11-one)

PDB for NP0287403 ((3s,5s,6as,6bs,9r,11as,11bs)-3,5,9-trihydroxy-9-[(1r)-1-[(2s,3r,5s)-3-hydroxy-5-methylpiperidin-2-yl]ethyl]-10,11b-dimethyl-1h,2h,3h,4h,4ah,5h,6h,6ah,6bh,7h,8h,11ah-cyclohexa[a]fluoren-11-one)

3D PDB for NP0287403 ((3s,5s,6as,6bs,9r,11as,11bs)-3,5,9-trihydroxy-9-[(1r)-1-[(2s,3r,5s)-3-hydroxy-5-methylpiperidin-2-yl]ethyl]-10,11b-dimethyl-1h,2h,3h,4h,4ah,5h,6h,6ah,6bh,7h,8h,11ah-cyclohexa[a]fluoren-11-one)

SMILES for NP0287403 ((3s,5s,6as,6bs,9r,11as,11bs)-3,5,9-trihydroxy-9-[(1r)-1-[(2s,3r,5s)-3-hydroxy-5-methylpiperidin-2-yl]ethyl]-10,11b-dimethyl-1h,2h,3h,4h,4ah,5h,6h,6ah,6bh,7h,8h,11ah-cyclohexa[a]fluoren-11-one)

INCHI for NP0287403 ((3s,5s,6as,6bs,9r,11as,11bs)-3,5,9-trihydroxy-9-[(1r)-1-[(2s,3r,5s)-3-hydroxy-5-methylpiperidin-2-yl]ethyl]-10,11b-dimethyl-1h,2h,3h,4h,4ah,5h,6h,6ah,6bh,7h,8h,11ah-cyclohexa[a]fluoren-11-one)

Structure for NP0287403 ((3s,5s,6as,6bs,9r,11as,11bs)-3,5,9-trihydroxy-9-[(1r)-1-[(2s,3r,5s)-3-hydroxy-5-methylpiperidin-2-yl]ethyl]-10,11b-dimethyl-1h,2h,3h,4h,4ah,5h,6h,6ah,6bh,7h,8h,11ah-cyclohexa[a]fluoren-11-one)

3D Structure for NP0287403 ((3s,5s,6as,6bs,9r,11as,11bs)-3,5,9-trihydroxy-9-[(1r)-1-[(2s,3r,5s)-3-hydroxy-5-methylpiperidin-2-yl]ethyl]-10,11b-dimethyl-1h,2h,3h,4h,4ah,5h,6h,6ah,6bh,7h,8h,11ah-cyclohexa[a]fluoren-11-one)