NP-MRD: Showing NP-Card for Serratanidine (NP0051058)

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Record Information

Version

2.0

Created at

2022-04-27 22:30:07 UTC

Updated at

2022-04-27 22:30:07 UTC

NP-MRD ID

NP0051058

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Serratanidine

Description

Serratanidine belongs to the class of organic compounds known as azaspirodecane derivatives. These are organic compounds containing a spirodecane moiety with at least one nitrogen atom. Serratanidine is found in Huperzia serrata , Lycopodium serratum var. serratum f. intermedium and Lycopodium serratum var. serratum f. serratum. Serratanidine was first documented in 2014 (PMID: 25042023). Based on a literature review very few articles have been published on Serratanidine.

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 46 49  0  0  0  0  0  0  0  0999 V2000
    3.7411    0.4981    0.0667 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.3738    0.7043    0.7368 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.6453    1.5629    1.8296 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.4974    1.4531   -0.1889 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.5887    0.6223   -1.0325 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.3188    1.4537   -1.6764 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0619   -0.5244   -0.3782 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.4232   -1.5036   -1.5128 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5119   -0.9984   -2.3890 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6682   -0.3794   -1.6803 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4710    0.0340   -0.3662 N   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0176    1.2931   -0.0008 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0812    1.9328    0.9678 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2895    0.7145    1.4596 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3281   -0.2722    0.3524 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.5102   -1.6299    0.9979 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4789   -2.3159    1.1155 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1527   -1.9762    1.4964 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8319   -1.2926    0.5360 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.8607   -0.5700    1.2766 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.9929   -1.4138    1.4620 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.7742   -0.5242   -0.3617 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.5448    0.5785    0.8058 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.8963    1.2737   -0.7152 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.5782    1.5334    2.0992 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.9594    2.2946    0.3414 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1524    2.0245   -0.9175 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.2383    0.2042   -1.8627 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0018    1.7667   -2.5563 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6519   -2.5012   -1.0969 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.5087   -1.6133   -2.1068 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8953   -1.8662   -2.9695 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0735   -0.3116   -3.1473 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9904    0.5146   -2.2953 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5773   -1.0450   -1.7130 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2604    1.9615   -0.8593 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9810    1.1108    0.5338 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4005    2.6800    0.5320 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5936    2.4320    1.8151 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9069    0.3310    2.3262 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3335    0.9873    1.8682 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.0275   -3.0424    1.6051 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0528   -1.4513    2.4897 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3201   -2.1558   -0.0088 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5144   -0.4457    2.3488 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.9860   -2.1285    0.7725 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  1
  2  4  1  0
  4  5  1  0
  5  6  1  0
  5  7  1  0
  7  8  1  6
  8  9  1  0
  9 10  1  0
 10 11  1  0
 11 12  1  0
 12 13  1  0
 13 14  1  0
 14 15  1  0
 15 16  1  1
 16 17  2  0
 16 18  1  0
 18 19  1  0
 19 20  1  0
 20 21  1  0
 20  2  1  0
 15  7  1  0
 19  7  1  0
 15 11  1  0
  1 22  1  0
  1 23  1  0
  1 24  1  0
  3 25  1  0
  4 26  1  0
  4 27  1  0
  5 28  1  6
  6 29  1  0
  8 30  1  0
  8 31  1  0
  9 32  1  0
  9 33  1  0
 10 34  1  0
 10 35  1  0
 12 36  1  0
 12 37  1  0
 13 38  1  0
 13 39  1  0
 14 40  1  0
 14 41  1  0
 18 42  1  0
 18 43  1  0
 19 44  1  6
 20 45  1  1
 21 46  1  0
M  END


  Mrv1652304282200302D          

 21 24  0  0  1  0            999 V2000
    0.8352    0.0491    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.0153    0.1410    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.1506    0.9492    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9019    1.2900    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.5667    1.3567    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1760    0.8005    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.9970    0.8810    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.4773    0.2102    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.1365   -0.5411    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3797   -0.5242    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    0.9747   -1.3730    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.1644    0.6668    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2401   -0.1041    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.3378    1.6323    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4742   -0.5230    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1439   -1.2790    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.6760   -1.3709    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1655   -0.7069    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2571   -0.2626    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2513    0.5623    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4650    0.8118    0.0000 C   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
  3  4  2  0  0  0  0
  3  5  1  0  0  0  0
  6  5  1  6  0  0  0
  1  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
  1 10  1  0  0  0  0
 10 11  1  6  0  0  0
  8 12  1  1  0  0  0
  8 13  1  6  0  0  0
  7 14  1  1  0  0  0
  2 15  1  1  0  0  0
 15 16  1  0  0  0  0
 16 17  1  0  0  0  0
 17 18  1  0  0  0  0
  1 18  1  1  0  0  0
 15 19  1  0  0  0  0
 19 20  1  0  0  0  0
 20 21  1  0  0  0  0
  2 21  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0051058

> <DATABASE_NAME>
NP-MRD

> <SMILES>
C[C@@]1(O)C[C@H](O)[C@]23CCCN4CCC[C@]24C(=O)C[C@@H]3[C@H]1O

> <INCHI_IDENTIFIER>
InChI=1S/C16H25NO4/c1-14(21)9-12(19)15-4-2-6-17-7-3-5-16(15,17)11(18)8-10(15)13(14)20/h10,12-13,19-21H,2-9H2,1H3/t10-,12+,13-,14-,15-,16+/m1/s1

> <INCHI_KEY>
YCOAYVRPLHVBDP-YSHXYTTRSA-N

> <FORMULA>
C16H25NO4

> <MOLECULAR_WEIGHT>
295.379

> <EXACT_MASS>
295.178358289

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_ATOM_COUNT>
46

> <JCHEM_AVERAGE_POLARIZABILITY>
31.320081204241962

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(1R,4S,5R,6R,8S,9S)-5,6,8-trihydroxy-6-methyl-13-azatetracyclo[7.7.0.0^{1,13}.0^{4,9}]hexadecan-2-one

> <ALOGPS_LOGP>
-0.23

> <JCHEM_LOGP>
-0.6171952153333338

> <ALOGPS_LOGS>
-0.67

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
4

> <JCHEM_PHYSIOLOGICAL_CHARGE>
1

> <JCHEM_PKA>
14.304133918973214

> <JCHEM_PKA_STRONGEST_ACIDIC>
13.367552788282982

> <JCHEM_PKA_STRONGEST_BASIC>
8.349222260902076

> <JCHEM_POLAR_SURFACE_AREA>
81.0

> <JCHEM_REFRACTIVITY>
77.1227

> <JCHEM_ROTATABLE_BOND_COUNT>
0

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
6.31e+01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(1R,4S,5R,6R,8S,9S)-5,6,8-trihydroxy-6-methyl-13-azatetracyclo[7.7.0.0^{1,13}.0^{4,9}]hexadecan-2-one

> <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       1.559   0.092   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       0.029   0.263   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      -0.281   1.772   0.000  0.00  0.00           C+0
HETATM    4  O   UNK     0      -1.684   2.408   0.000  0.00  0.00           O+0
HETATM    5  C   UNK     0       1.058   2.533   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       2.195   1.494   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       3.728   1.645   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       4.624   0.392   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       3.988  -1.010   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       2.575  -0.979   0.000  0.00  0.00           C+0
HETATM   11  O   UNK     0       1.819  -2.563   0.000  0.00  0.00           O+0
HETATM   12  C   UNK     0       5.907   1.245   0.000  0.00  0.00           C+0
HETATM   13  O   UNK     0       6.048  -0.194   0.000  0.00  0.00           O+0
HETATM   14  O   UNK     0       4.364   3.047   0.000  0.00  0.00           O+0
HETATM   15  N   UNK     0      -0.885  -0.976   0.000  0.00  0.00           N+0
HETATM   16  C   UNK     0      -0.269  -2.387   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       1.262  -2.559   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       2.176  -1.319   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0      -2.347  -0.490   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0      -2.336   1.050   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0      -0.868   1.515   0.000  0.00  0.00           C+0
CONECT    1    2    6   10   18                                             
CONECT    2    1    3   15   21                                             
CONECT    3    2    4    5                                                  
CONECT    4    3                                                            
CONECT    5    3    6                                                       
CONECT    6    5    1    7                                                  
CONECT    7    6    8   14                                                  
CONECT    8    7    9   12   13                                             
CONECT    9    8   10                                                       
CONECT   10    9    1   11                                                  
CONECT   11   10                                                            
CONECT   12    8                                                            
CONECT   13    8                                                            
CONECT   14    7                                                            
CONECT   15    2   16   19                                                  
CONECT   16   15   17                                                       
CONECT   17   16   18                                                       
CONECT   18   17    1                                                       
CONECT   19   15   20                                                       
CONECT   20   19   21                                                       
CONECT   21   20    2                                                       
MASTER        0    0    0    0    0    0    0    0   21    0   48    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₁₆H₂₅NO₄

Average Mass

295.3790 Da

Monoisotopic Mass

295.17836 Da

IUPAC Name

(1R,4S,5R,6R,8S,9S)-5,6,8-trihydroxy-6-methyl-13-azatetracyclo[7.7.0.0^{1,13}.0^{4,9}]hexadecan-2-one

Traditional Name

(1R,4S,5R,6R,8S,9S)-5,6,8-trihydroxy-6-methyl-13-azatetracyclo[7.7.0.0^{1,13}.0^{4,9}]hexadecan-2-one

CAS Registry Number

Not Available

SMILES

C[C@@]1(O)C[C@H](O)[C@]23CCCN4CCC[C@]24C(=O)C[C@@H]3[C@H]1O

InChI Identifier

InChI=1S/C16H25NO4/c1-14(21)9-12(19)15-4-2-6-17-7-3-5-16(15,17)11(18)8-10(15)13(14)20/h10,12-13,19-21H,2-9H2,1H3/t10-,12+,13-,14-,15-,16+/m1/s1

InChI Key

YCOAYVRPLHVBDP-YSHXYTTRSA-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
Huperzia serrata	Plant	KNApSAcK
Lycopodium serratum var. serratum f. intermedium	Plant	KNApSAcK
Lycopodium serratum var. serratum f. serratum	Plant	KNApSAcK

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as azaspirodecane derivatives. These are organic compounds containing a spirodecane moiety with at least one nitrogen atom.

Kingdom

Organic compounds

Super Class

Organoheterocyclic compounds

Class

Azaspirodecane derivatives

Sub Class

Not Available

Direct Parent

Azaspirodecane derivatives

Alternative Parents

Substituents

Azaspirodecane
Indolizidine
Cyclitol or derivatives
Piperidine
N-alkylpyrrolidine
Cyclic alcohol
Pyrrolidine
Tertiary alcohol
Tertiary amine
Tertiary aliphatic amine
Secondary alcohol
Ketone
Azacycle
Polyol
Organooxygen compound
Organonitrogen compound
Organopnictogen compound
Alcohol
Carbonyl group
Organic oxygen compound
Organic nitrogen compound
Amine
Organic oxide
Hydrocarbon derivative
Aliphatic heteropolycyclic compound

Molecular Framework

Aliphatic heteropolycyclic compounds

External Descriptors

azaspiro compound (CHEBI:9120 )

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	-0.23	ALOGPS
logP	-0.62	ChemAxon
logS	-0.67	ALOGPS
pKa (Strongest Acidic)	13.37	ChemAxon
pKa (Strongest Basic)	8.35	ChemAxon
Physiological Charge	1	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	81 Å²	ChemAxon
Rotatable Bond Count	0	ChemAxon
Refractivity	77.12 m³·mol⁻¹	ChemAxon
Polarizability	31.32 Å³	ChemAxon
Number of Rings	4	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

C00001957

Chemspider ID

390925

KEGG Compound ID

C09899

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

442499

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Zaimoku H, Taniguchi T: Redox divergent synthesis of fawcettimine-type Lycopodium alkaloids. Chemistry. 2014 Jul 28;20(31):9613-9. doi: 10.1002/chem.201403163. Epub 2014 Jul 7. [PubMed:25042023 ]

Showing NP-Card for Serratanidine (NP0051058)

MOL for NP0051058 (Serratanidine)

3D MOL for NP0051058 (Serratanidine)

3D SDF for NP0051058 (Serratanidine)

3D-SDF for NP0051058 (Serratanidine)

PDB for NP0051058 (Serratanidine)

3D PDB for NP0051058 (Serratanidine)

SMILES for NP0051058 (Serratanidine)

INCHI for NP0051058 (Serratanidine)

Structure for NP0051058 (Serratanidine)

3D Structure for NP0051058 (Serratanidine)