NP-MRD: Showing NP-Card for (2r,3s)-2-aminododecan-3-ol (NP0271209)

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Record Information

Version

2.0

Created at

2022-09-08 17:25:38 UTC

Updated at

2022-09-08 17:25:38 UTC

NP-MRD ID

NP0271209

Secondary Accession Numbers

None

Natural Product Identification

Common Name

(2r,3s)-2-aminododecan-3-ol

Description

(?)-Clavaminol A, also known as clavaminol a, belongs to the class of organic compounds known as 1,2-aminoalcohols. These are organic compounds containing an alkyl chain with an amine group bound to the C1 atom and an alcohol group bound to the C2 atom. (2r,3s)-2-aminododecan-3-ol is found in Clavelina oblonga. (2r,3s)-2-aminododecan-3-ol was first documented in 2007 (PMID: 17336534). Based on a literature review a small amount of articles have been published on (?)-Clavaminol A (PMID: 35861502) (PMID: 27187861) (PMID: 21879135).

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 41 40  0  0  0  0  0  0  0  0999 V2000
   -6.2866    0.2891   -0.1705 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.7998    0.2248   -0.5515 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0299    0.4042    0.7170 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5526    0.3717    0.4447 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1473   -0.9341   -0.1503 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6697   -0.9871   -0.4391 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1191   -0.8093    0.8222 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6012   -0.9065    0.5493 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0083    0.1553   -0.4112 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4953    0.1257   -0.7149 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.8234   -1.0886   -1.2604 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.2705    0.3719    0.5354 C   0  0  1  0  0  0  0  0  0  0  0  0
    5.7682    0.4376    0.2369 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9408    1.6532    1.1400 N   0  0  0  0  0  0  0  0  0  0  0  0
   -6.4060   -0.3365    0.7412 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.5833    1.3388    0.0344 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.8445   -0.1543   -1.0021 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6508    1.0566   -1.2618 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6586   -0.7258   -1.0646 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.2955    1.3843    1.2009 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3082   -0.3541    1.4858 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9802    0.5574    1.3976 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2513    1.1846   -0.2568 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3601   -1.7260    0.6126 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7363   -1.1804   -1.0525 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4571   -1.9287   -0.9495 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4632   -0.1580   -1.1579 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0521    0.2227    1.2567 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1730   -1.5402    1.6001 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7992   -1.9373    0.1503 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.1612   -0.8377    1.5108 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.6544    1.1254   -0.0611 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4927   -0.0666   -1.3955 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.7463    0.9186   -1.4561 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4525   -1.1466   -2.1724 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.1354   -0.4520    1.2564 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.1937   -0.5627    0.0409 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.8673    1.1317   -0.6247 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.2258    0.9464    1.1144 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.2227    1.5531    1.8911 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.7282    2.3795    0.4502 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
  7  8  1  0
  8  9  1  0
  9 10  1  0
 10 11  1  0
 10 12  1  0
 12 13  1  0
 12 14  1  0
  1 15  1  0
  1 16  1  0
  1 17  1  0
  2 18  1  0
  2 19  1  0
  3 20  1  0
  3 21  1  0
  4 22  1  0
  4 23  1  0
  5 24  1  0
  5 25  1  0
  6 26  1  0
  6 27  1  0
  7 28  1  0
  7 29  1  0
  8 30  1  0
  8 31  1  0
  9 32  1  0
  9 33  1  0
 10 34  1  6
 11 35  1  0
 12 36  1  1
 13 37  1  0
 13 38  1  0
 13 39  1  0
 14 40  1  0
 14 41  1  0
M  END

HEADER    PROTEIN                                 08-SEP-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   08-SEP-22         0                                  
HETATM    1  C   UNK     0       6.573   5.335   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       7.906   6.105   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       9.240   5.335   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      10.574   6.105   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      11.907   5.335   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      13.241   6.105   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0      14.575   5.335   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      15.908   6.105   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0      17.242   5.335   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0      18.576   6.105   0.000  0.00  0.00           C+0
HETATM   11  O   UNK     0      18.576   7.645   0.000  0.00  0.00           O+0
HETATM   12  C   UNK     0      19.909   5.335   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0      21.243   6.105   0.000  0.00  0.00           C+0
HETATM   14  N   UNK     0      19.909   3.795   0.000  0.00  0.00           N+0
CONECT    1    2                                                            
CONECT    2    1    3                                                       
CONECT    3    2    4                                                       
CONECT    4    3    5                                                       
CONECT    5    4    6                                                       
CONECT    6    5    7                                                       
CONECT    7    6    8                                                       
CONECT    8    7    9                                                       
CONECT    9    8   10                                                       
CONECT   10    9   11   12                                                  
CONECT   11   10                                                            
CONECT   12   10   13   14                                                  
CONECT   13   12                                                            
CONECT   14   12                                                            
MASTER        0    0    0    0    0    0    0    0   14    0   26    0
END

View in JSmol

Synonyms

Value	Source
Clavaminol a	MeSH

Chemical Formula

C₁₂H₂₇NO

Average Mass

201.3540 Da

Monoisotopic Mass

201.20926 Da

IUPAC Name

Not Available

Traditional Name

Not Available

CAS Registry Number

Not Available

SMILES

CCCCCCCCC[C@H](O)[C@@H](C)N

InChI Identifier

InChI=1S/C12H27NO/c1-3-4-5-6-7-8-9-10-12(14)11(2)13/h11-12,14H,3-10,13H2,1-2H3/t11-,12+/m1/s1

InChI Key

AGYWAEBSOUKZJQ-NEPJUHHUSA-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
Clavelina oblonga	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as 1,2-aminoalcohols. These are organic compounds containing an alkyl chain with an amine group bound to the C1 atom and an alcohol group bound to the C2 atom.

Kingdom

Organic compounds

Super Class

Organic nitrogen compounds

Class

Organonitrogen compounds

Sub Class

Amines

Direct Parent

1,2-aminoalcohols

Alternative Parents

Substituents

Secondary alcohol
1,2-aminoalcohol
Organic oxygen compound
Hydrocarbon derivative
Primary amine
Organooxygen compound
Primary aliphatic amine
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

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

20570664

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Bracket

METLIN ID

Not Available

PubChem Compound

16739261

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Sauer M, Beemelmanns C: Application of pyrrolo-protected amino aldehydes in the stereoselective synthesis of anti-1,2-amino alcohols. Chem Commun (Camb). 2022 Aug 9;58(64):8990-8993. doi: 10.1039/d2cc02317b. [PubMed:35861502 ]
Vijai Kumar Reddy T, Jyotsna A, Prabhavathi Devi BL, Prasad RB, Poornachandra Y, Ganesh Kumar C: Total synthesis and in vitro bioevaluation of clavaminols A, C, H & deacetyl clavaminol H as potential chemotherapeutic and antibiofilm agents. Eur J Med Chem. 2016 Sep 14;120:86-96. doi: 10.1016/j.ejmech.2016.04.073. Epub 2016 May 6. [PubMed:27187861 ]
Zaed AM, Sutherland A: Total synthesis of clavaminol A, C and H. Org Biomol Chem. 2011 Dec 7;9(23):8030-7. doi: 10.1039/c1ob06060k. Epub 2011 Aug 30. [PubMed:21879135 ]
Aiello A, Fattorusso E, Giordano A, Menna M, Navarrete C, Munoz E: Clavaminols A-F, novel cytotoxic 2-amino-3-alkanols from the ascidian Clavelina phlegraea. Bioorg Med Chem. 2007 Apr 15;15(8):2920-6. doi: 10.1016/j.bmc.2007.02.015. Epub 2007 Feb 13. [PubMed:17336534 ]
LOTUS database [Link]

Showing NP-Card for (2r,3s)-2-aminododecan-3-ol (NP0271209)

MOL for NP0271209 ((2r,3s)-2-aminododecan-3-ol)

3D MOL for NP0271209 ((2r,3s)-2-aminododecan-3-ol)

3D SDF for NP0271209 ((2r,3s)-2-aminododecan-3-ol)

3D-SDF for NP0271209 ((2r,3s)-2-aminododecan-3-ol)

PDB for NP0271209 ((2r,3s)-2-aminododecan-3-ol)

3D PDB for NP0271209 ((2r,3s)-2-aminododecan-3-ol)

SMILES for NP0271209 ((2r,3s)-2-aminododecan-3-ol)

INCHI for NP0271209 ((2r,3s)-2-aminododecan-3-ol)

Structure for NP0271209 ((2r,3s)-2-aminododecan-3-ol)

3D Structure for NP0271209 ((2r,3s)-2-aminododecan-3-ol)