NP-MRD: Showing NP-Card for Cadinene-beta (NP0050094)

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Record Information

Version

2.0

Created at

2022-03-17 21:23:09 UTC

Updated at

2022-03-17 21:23:09 UTC

NP-MRD ID

NP0050094

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Cadinene-beta

Description

(2S)-2-{[(2S)-2-{[(2R)-2-{[(2S)-2-amino-1-hydroxy-3-(C-hydroxycarbonimidoyl)propylidene]amino}-1-hydroxy-3-selanylpropylidene]amino}-1-hydroxy-4-methylpentylidene]amino}-4-methylpentanoic acid belongs to the class of organic compounds known as oligopeptides. These are organic compounds containing a sequence of between three and ten alpha-amino acids joined by peptide bonds (2S)-2-{[(2S)-2-{[(2R)-2-{[(2S)-2-amino-1-hydroxy-3-(C-hydroxycarbonimidoyl)propylidene]amino}-1-hydroxy-3-selanylpropylidene]amino}-1-hydroxy-4-methylpentylidene]amino}-4-methylpentanoic acid is a very strong basic compound (based on its pKa).

Structure

MOL SDF PDB SMILES InChI


  Mrv1533007301515452D          

 32 31  0  0  0  0            999 V2000
   -2.8579    0.0000    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0329    0.0000    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    0.2211    0.0000    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.7605    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.0145    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.9829   -0.0000    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3184    0.4125    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.3184    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0329    1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7474    1.2375    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0329    2.4750    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6039    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6039   -0.8250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.9355    0.4125    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.9355    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6500    1.6500    0.0000 Se  0  0  0  0  0  0  0  0  0  0  0  0
    1.6500    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6500   -0.8250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.4750    1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4750    2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1895    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1895    0.4125    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.4750    0.0000    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    3.9039    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9039   -0.8250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.7289    1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.7289    2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.4434    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.4434    0.4125    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    4.7289    0.0000    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    6.1579   -0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.1579   -0.8250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
 12  3  1  0  0  0  0
 17 23  1  0  0  0  0
 24 30  1  0  0  0  0
 31  6  1  0  0  0  0
  7  2  1  1  0  0  0
  7  8  1  0  0  0  0
  8  9  1  0  0  0  0
  9 10  1  0  0  0  0
  9 11  2  0  0  0  0
  7 12  1  0  0  0  0
 12 13  2  0  0  0  0
 14  3  1  1  0  0  0
 14 15  1  0  0  0  0
 15 16  1  0  0  0  0
 14 17  1  0  0  0  0
 17 18  2  0  0  0  0
  4 19  1  0  0  0  0
 19 20  1  0  0  0  0
 19 21  1  0  0  0  0
 21 22  1  0  0  0  0
 22 23  1  1  0  0  0
 22 24  1  0  0  0  0
 24 25  2  0  0  0  0
  5 26  1  0  0  0  0
 26 27  1  0  0  0  0
 26 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  2  0  0  0  0
M  STY  4   1 SUP   2 SUP   3 SUP   4 SUP
M  SAL   1  8   2   7   8   9  10  11  12  13
M  SBL   1  2   1   2
M  SMT   1 Asn
M  SAP   1  3   2   1 Al  12   3 Br  10   0 Cx
M  SCL   1 AA
M  SAL   2  6   3  14  15  16  17  18
M  SBL   2  2   2   3
M  SMT   2 Sec
M  SAP   2  3   3  12 Al  17  23 Br  16   0 Cx
M  SCL   2 AA
M  SAL   3  8   4  19  20  21  22  23  24  25
M  SBL   3  2   3   4
M  SMT   3 Leu
M  SAP   3  2  23  17 Al  24  30 Br
M  SCL   3 AA
M  SAL   4  8   5  26  27  28  29  30  31  32
M  SBL   4  2   4   5
M  SMT   4 Leu
M  SAP   4  2  30  24 Al  31   6 Br
M  SCL   4 AA
M  END


  Mrv1533007301515452D          

 32 31  0  0  0  0            999 V2000
   -2.8579    0.0000    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0329    0.0000    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    0.2211    0.0000    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.7605    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.0145    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.9829   -0.0000    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3184    0.4125    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.3184    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0329    1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7474    1.2375    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0329    2.4750    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6039    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6039   -0.8250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.9355    0.4125    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.9355    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6500    1.6500    0.0000 Se  0  0  0  0  0  0  0  0  0  0  0  0
    1.6500    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6500   -0.8250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.4750    1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4750    2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1895    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1895    0.4125    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.4750    0.0000    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    3.9039    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9039   -0.8250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.7289    1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.7289    2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.4434    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.4434    0.4125    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    4.7289    0.0000    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    6.1579   -0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.1579   -0.8250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
 12  3  1  0  0  0  0
 17 23  1  0  0  0  0
 24 30  1  0  0  0  0
 31  6  1  0  0  0  0
  7  2  1  1  0  0  0
  7  8  1  0  0  0  0
  8  9  1  0  0  0  0
  9 10  1  0  0  0  0
  9 11  2  0  0  0  0
  7 12  1  0  0  0  0
 12 13  2  0  0  0  0
 14  3  1  1  0  0  0
 14 15  1  0  0  0  0
 15 16  1  0  0  0  0
 14 17  1  0  0  0  0
 17 18  2  0  0  0  0
  4 19  1  0  0  0  0
 19 20  1  0  0  0  0
 19 21  1  0  0  0  0
 21 22  1  0  0  0  0
 22 23  1  1  0  0  0
 22 24  1  0  0  0  0
 24 25  2  0  0  0  0
  5 26  1  0  0  0  0
 26 27  1  0  0  0  0
 26 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  2  0  0  0  0
M  STY  4   1 SUP   2 SUP   3 SUP   4 SUP
M  SAL   1  8   2   7   8   9  10  11  12  13
M  SBL   1  2   1   2
M  SMT   1 Asn
M  SAP   1  3   2   1 Al  12   3 Br  10   0 Cx
M  SCL   1 AA
M  SAL   2  6   3  14  15  16  17  18
M  SBL   2  2   2   3
M  SMT   2 Sec
M  SAP   2  3   3  12 Al  17  23 Br  16   0 Cx
M  SCL   2 AA
M  SAL   3  8   4  19  20  21  22  23  24  25
M  SBL   3  2   3   4
M  SMT   3 Leu
M  SAP   3  2  23  17 Al  24  30 Br
M  SCL   3 AA
M  SAL   4  8   5  26  27  28  29  30  31  32
M  SBL   4  2   4   5
M  SMT   4 Leu
M  SAP   4  2  30  24 Al  31   6 Br
M  SCL   4 AA
M  END
> <DATABASE_ID>
NP0050094

> <DATABASE_NAME>
NP-MRD

> <SMILES>
[H]N[C@@H](CC(N)=O)C(=O)N[C@@H](C[SeH])C(=O)N[C@@H](CC(C)C)C(=O)N[C@@H](CC(C)C)C(O)=O

> <INCHI_IDENTIFIER>
InChI=1S/C19H35N5O6Se/c1-9(2)5-12(17(27)23-13(19(29)30)6-10(3)4)22-18(28)14(8-31)24-16(26)11(20)7-15(21)25/h9-14,31H,5-8,20H2,1-4H3,(H2,21,25)(H,22,28)(H,23,27)(H,24,26)(H,29,30)/t11-,12-,13-,14-/m0/s1

> <INCHI_KEY>
VOSSYQZSALYRPE-XUXIUFHCSA-N

> <FORMULA>
C19H35N5O6Se

> <MOLECULAR_WEIGHT>
508.489

> <EXACT_MASS>
509.175256

> <JCHEM_ACCEPTOR_COUNT>
8

> <JCHEM_ATOM_COUNT>
66

> <JCHEM_AVERAGE_POLARIZABILITY>
46.56188570509128

> <JCHEM_BIOAVAILABILITY>
0

> <JCHEM_DONOR_COUNT>
7

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
[(2S)-2-(asparagylamino)-3-selanylpropanoyl]leucylleucine

> <ALOGPS_LOGP>
-2.66

> <JCHEM_LOGP>
-4.731786364194899

> <ALOGPS_LOGS>
-2.68

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
0

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
9.955233463283287

> <JCHEM_PKA_STRONGEST_ACIDIC>
3.3735254043372915

> <JCHEM_PKA_STRONGEST_BASIC>
7.045334936423273

> <JCHEM_POLAR_SURFACE_AREA>
193.70999999999998

> <JCHEM_REFRACTIVITY>
120.54389999999995

> <JCHEM_ROTATABLE_BOND_COUNT>
14

> <JCHEM_RULE_OF_FIVE>
0

> <ALOGPS_SOLUBILITY>
1.05e+00 g/l

> <JCHEM_TRADITIONAL_IUPAC>
[(2S)-2-(asparagylamino)-3-selanylpropanoyl]leucylleucine

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 30-JUL-15   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   30-JUL-15         0                                  
HETATM    1  H   UNK     0      -5.335   0.000   0.000  0.00  0.00           H+0
HETATM    2  N   Asn     1      -3.795   0.000   0.000  0.00  0.00           N+0
HETATM    3  N   Sec     2       0.413   0.000   0.000  0.00  0.00           N+0
HETATM    4  C   Leu     3       3.286   2.310   0.000  0.00  0.00           C+0
HETATM    5  C   Leu     4       7.494   2.310   0.000  0.00  0.00           C+0
HETATM    6  O   UNK     0      13.035  -0.000   0.000  0.00  0.00           O+0
HETATM    7  C   Asn     1      -2.461   0.770   0.000  0.00  0.00           C+0
HETATM    8  C   Asn     1      -2.461   2.310   0.000  0.00  0.00           C+0
HETATM    9  C   Asn     1      -3.795   3.080   0.000  0.00  0.00           C+0
HETATM   10  N   Asn     1      -5.128   2.310   0.000  0.00  0.00           N+0
HETATM   11  O   Asn     1      -3.795   4.620   0.000  0.00  0.00           O+0
HETATM   12  C   Asn     1      -1.127   0.000   0.000  0.00  0.00           C+0
HETATM   13  O   Asn     1      -1.127  -1.540   0.000  0.00  0.00           O+0
HETATM   14  C   Sec     2       1.746   0.770   0.000  0.00  0.00           C+0
HETATM   15  C   Sec     2       1.746   2.310   0.000  0.00  0.00           C+0
HETATM   16 Se   Sec     2       3.080   3.080   0.000  0.00  0.00          Se+0
HETATM   17  C   Sec     2       3.080   0.000   0.000  0.00  0.00           C+0
HETATM   18  O   Sec     2       3.080  -1.540   0.000  0.00  0.00           O+0
HETATM   19  C   Leu     3       4.620   3.080   0.000  0.00  0.00           C+0
HETATM   20  C   Leu     3       4.620   4.620   0.000  0.00  0.00           C+0
HETATM   21  C   Leu     3       5.954   2.310   0.000  0.00  0.00           C+0
HETATM   22  C   Leu     3       5.954   0.770   0.000  0.00  0.00           C+0
HETATM   23  N   Leu     3       4.620   0.000   0.000  0.00  0.00           N+0
HETATM   24  C   Leu     3       7.287   0.000   0.000  0.00  0.00           C+0
HETATM   25  O   Leu     3       7.287  -1.540   0.000  0.00  0.00           O+0
HETATM   26  C   Leu     4       8.827   3.080   0.000  0.00  0.00           C+0
HETATM   27  C   Leu     4       8.827   4.620   0.000  0.00  0.00           C+0
HETATM   28  C   Leu     4      10.161   2.310   0.000  0.00  0.00           C+0
HETATM   29  C   Leu     4      10.161   0.770   0.000  0.00  0.00           C+0
HETATM   30  N   Leu     4       8.827   0.000   0.000  0.00  0.00           N+0
HETATM   31  C   Leu     4      11.495  -0.000   0.000  0.00  0.00           C+0
HETATM   32  O   Leu     4      11.495  -1.540   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    7    1                                                       
CONECT    3   14   12                                                       
CONECT    4   19                                                            
CONECT    5   26                                                            
CONECT    6   31                                                            
CONECT    7    2    8   12                                                  
CONECT    8    7    9                                                       
CONECT    9    8   10   11                                                  
CONECT   10    9                                                            
CONECT   11    9                                                            
CONECT   12    7   13    3                                                  
CONECT   13   12                                                            
CONECT   14    3   15   17                                                  
CONECT   15   14   16                                                       
CONECT   16   15                                                            
CONECT   17   14   18   23                                                  
CONECT   18   17                                                            
CONECT   19    4   20   21                                                  
CONECT   20   19                                                            
CONECT   21   19   22                                                       
CONECT   22   21   23   24                                                  
CONECT   23   22   17                                                       
CONECT   24   22   25   30                                                  
CONECT   25   24                                                            
CONECT   26    5   27   28                                                  
CONECT   27   26                                                            
CONECT   28   26   29                                                       
CONECT   29   28   30   31                                                  
CONECT   30   29   24                                                       
CONECT   31   29   32    6                                                  
CONECT   32   31                                                            
MASTER        0    0    0    0    0    0    0    0   32    0   62    0
END

View in JSmol

Synonyms

Value	Source
(2S)-2-{[(2S)-2-{[(2R)-2-{[(2S)-2-amino-1-hydroxy-3-(C-hydroxycarbonimidoyl)propylidene]amino}-1-hydroxy-3-selanylpropylidene]amino}-1-hydroxy-4-methylpentylidene]amino}-4-methylpentanoate	Generator

Chemical Formula

C₁₉H₃₅N₅O₆Se

Average Mass

508.4890 Da

Monoisotopic Mass

509.17526 Da

IUPAC Name

[(2S)-2-(asparagylamino)-3-selanylpropanoyl]leucylleucine

Traditional Name

[(2S)-2-(asparagylamino)-3-selanylpropanoyl]leucylleucine

CAS Registry Number

Not Available

SMILES

[H]N[C@@H](CC(N)=O)C(=O)N[C@@H](C[SeH])C(=O)N[C@@H](CC(C)C)C(=O)N[C@@H](CC(C)C)C(O)=O

InChI Identifier

InChI=1S/C19H35N5O6Se/c1-9(2)5-12(17(27)23-13(19(29)30)6-10(3)4)22-18(28)14(8-31)24-16(26)11(20)7-15(21)25/h9-14,31H,5-8,20H2,1-4H3,(H2,21,25)(H,22,28)(H,23,27)(H,24,26)(H,29,30)/t11-,12-,13-,14-/m0/s1

InChI Key

VOSSYQZSALYRPE-XUXIUFHCSA-N

Experimental Spectra

Not Available

Predicted Spectra

Not Available

Chemical Shift Submissions

Not Available

Species

Species of Origin

Species Name	Source	Reference
Vitis	FooDB	PHYTOHUB

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as oligopeptides. These are organic compounds containing a sequence of between three and ten alpha-amino acids joined by peptide bonds.

Kingdom

Organic compounds

Super Class

Organic acids and derivatives

Class

Carboxylic acids and derivatives

Sub Class

Amino acids, peptides, and analogues

Direct Parent

Oligopeptides

Alternative Parents

Substituents

Alpha-oligopeptide
Leucine or derivatives
Asparagine or derivatives
N-acyl-alpha amino acid or derivatives
N-acyl-alpha-amino acid
N-acyl-l-alpha-amino acid
Alpha-amino acid amide
N-substituted-alpha-amino acid
Alpha-amino acid or derivatives
N-acyl-amine
Fatty acyl
Fatty acid
Fatty amide
Amino acid or derivatives
Amino acid
Secondary carboxylic acid amide
Primary carboxylic acid amide
Carboxamide group
Monocarboxylic acid or derivatives
Carboxylic acid
Organic nitrogen compound
Organonitrogen compound
Organooxygen compound
Organoselenium compound
Primary aliphatic amine
Primary amine
Selenol
Hydrocarbon derivative
Carbonyl group
Organic oxide
Amine
Organopnictogen compound
Organic oxygen 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	-2.7	ALOGPS
logP	-4.7	ChemAxon
logS	-2.7	ALOGPS
pKa (Strongest Acidic)	3.37	ChemAxon
pKa (Strongest Basic)	7.05	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	8	ChemAxon
Hydrogen Donor Count	7	ChemAxon
Polar Surface Area	193.71 Å²	ChemAxon
Rotatable Bond Count	14	ChemAxon
Refractivity	120.54 m³·mol⁻¹	ChemAxon
Polarizability	46.56 Å³	ChemAxon
Number of Rings	0	ChemAxon
Bioavailability	No	ChemAxon
Rule of Five	No	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

Not Available

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Not Available

Showing NP-Card for Cadinene-beta (NP0050094)

MOL for NP0050094 (Cadinene-beta)

3D MOL for NP0050094 (Cadinene-beta)

3D SDF for NP0050094 (Cadinene-beta)

3D-SDF for NP0050094 (Cadinene-beta)

PDB for NP0050094 (Cadinene-beta)

3D PDB for NP0050094 (Cadinene-beta)

SMILES for NP0050094 (Cadinene-beta)

INCHI for NP0050094 (Cadinene-beta)

Structure for NP0050094 (Cadinene-beta)

3D Structure for NP0050094 (Cadinene-beta)