NP-MRD: Showing NP-Card for Colachalasin D (NP0350934)

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Record Information

Version

2.0

Created at

2025-04-11 22:06:43 UTC

Updated at

2025-07-24 18:35:20 UTC

NP-MRD ID

NP0350934

Natural Product DOI

https://doi.org/10.57994/3919

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Colachalasin D

Description

Based on a literature review very few articles have been published on Colachalasin D.

Structure

MOL SDF PDB SMILES InChI


  Mrv2104 01232300332D          

 35 39  0  0  1  0            999 V2000
    3.6425   -3.4074    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2651   -2.5668    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    4.0271   -2.3141    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    4.2394   -3.3366    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.7890   -2.0614    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.0555   -1.3764    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    3.4144   -1.1488    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    4.1271   -1.7309    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.8405   -1.2380    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.5278   -1.6943    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.4763   -2.5177    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    6.3309   -2.8841    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.3649   -0.3253    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.6755   -1.5159    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.5778   -2.1105    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.3368   -2.9214    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2598   -3.6190    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9472   -4.0753    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.6860   -3.7082    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.7375   -2.8848    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.5149   -3.4001    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.1586   -2.8060    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.6494   -2.4651    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.4494   -3.2655    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.8250   -2.5447    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.3827   -1.8483    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.9084   -1.2125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6907   -0.3745    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.4525   -3.3205    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.6399   -3.3432    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2475   -4.0688    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5772   -4.0918    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0094   -3.3891    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6169   -2.6634    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2077   -2.6404    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  2  1  1  1  0  0  0
  2  3  1  0  0  0  0
  3  4  1  1  0  0  0
  3  5  1  0  0  0  0
  3  6  1  0  0  0  0
  6  5  1  6  0  0  0
  7  6  1  0  0  0  0
  7  8  1  0  0  0  0
  8  9  2  0  0  0  0
  9 10  1  0  0  0  0
 11 10  1  0  0  0  0
 11 12  1  6  0  0  0
  7 13  1  1  0  0  0
 14  7  1  0  0  0  0
 14 15  1  0  0  0  0
 15 16  1  0  0  0  0
 16 17  1  0  0  0  0
 17 18  1  0  0  0  0
 18 19  1  0  0  0  0
 19 20  1  0  0  0  0
 11 20  1  0  0  0  0
 20 21  2  0  0  0  0
 16 22  2  0  0  0  0
 23 14  1  0  0  0  0
 23  2  1  0  0  0  0
 23 24  1  6  0  0  0
 23 25  1  0  0  0  0
 25 26  1  0  0  0  0
 26 27  1  0  0  0  0
 14 27  1  1  0  0  0
 27 28  2  0  0  0  0
 25 29  1  6  0  0  0
 29 30  1  0  0  0  0
 30 31  2  0  0  0  0
 31 32  1  0  0  0  0
 32 33  2  0  0  0  0
 33 34  1  0  0  0  0
 34 35  2  0  0  0  0
 30 35  1  0  0  0  0
M  END


  Mrv2104 01232300332D          

 35 39  0  0  1  0            999 V2000
    3.6425   -3.4074    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2651   -2.5668    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    4.0271   -2.3141    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    4.2394   -3.3366    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.7890   -2.0614    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.0555   -1.3764    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    3.4144   -1.1488    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    4.1271   -1.7309    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.8405   -1.2380    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.5278   -1.6943    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.4763   -2.5177    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    6.3309   -2.8841    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.3649   -0.3253    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.6755   -1.5159    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    2.5778   -2.1105    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.3368   -2.9214    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2598   -3.6190    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9472   -4.0753    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.6860   -3.7082    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.7375   -2.8848    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.5149   -3.4001    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.1586   -2.8060    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.6494   -2.4651    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.4494   -3.2655    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.8250   -2.5447    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.3827   -1.8483    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.9084   -1.2125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6907   -0.3745    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.4525   -3.3205    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.6399   -3.3432    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2475   -4.0688    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5772   -4.0918    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0094   -3.3891    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6169   -2.6634    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.2077   -2.6404    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  2  1  1  1  0  0  0
  2  3  1  0  0  0  0
  3  4  1  1  0  0  0
  3  5  1  0  0  0  0
  3  6  1  0  0  0  0
  6  5  1  6  0  0  0
  7  6  1  0  0  0  0
  7  8  1  0  0  0  0
  8  9  2  0  0  0  0
  9 10  1  0  0  0  0
 11 10  1  0  0  0  0
 11 12  1  6  0  0  0
  7 13  1  1  0  0  0
 14  7  1  0  0  0  0
 14 15  1  0  0  0  0
 15 16  1  0  0  0  0
 16 17  1  0  0  0  0
 17 18  1  0  0  0  0
 18 19  1  0  0  0  0
 19 20  1  0  0  0  0
 11 20  1  0  0  0  0
 20 21  2  0  0  0  0
 16 22  2  0  0  0  0
 23 14  1  0  0  0  0
 23  2  1  0  0  0  0
 23 24  1  6  0  0  0
 23 25  1  0  0  0  0
 25 26  1  0  0  0  0
 26 27  1  0  0  0  0
 14 27  1  1  0  0  0
 27 28  2  0  0  0  0
 25 29  1  6  0  0  0
 29 30  1  0  0  0  0
 30 31  2  0  0  0  0
 31 32  1  0  0  0  0
 32 33  2  0  0  0  0
 33 34  1  0  0  0  0
 34 35  2  0  0  0  0
 30 35  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0350934

> <DATABASE_NAME>
NP-MRD

> <SMILES>
[H][C@]12[C@H](CC3=CC=CC=C3)NC(=O)[C@]11OC(=O)CCCC(=O)[C@@H](C)C\C=C\[C@@]1([H])[C@@H]1O[C@]1(C)[C@H]2C

> <INCHI_IDENTIFIER>
InChI=1S/C27H33NO5/c1-16-9-7-12-19-24-26(3,33-24)17(2)23-20(15-18-10-5-4-6-11-18)28-25(31)27(19,23)32-22(30)14-8-13-21(16)29/h4-7,10-12,16-17,19-20,23-24H,8-9,13-15H2,1-3H3,(H,28,31)/b12-7+/t16-,17-,19-,20-,23-,24-,26+,27+/m0/s1

> <INCHI_KEY>
RBPHNJVPPVVSAS-LWFLBTMNSA-N

> <FORMULA>
C27H33NO5

> <MOLECULAR_WEIGHT>
451.563

> <EXACT_MASS>
451.235873167

> <JCHEM_ACCEPTOR_COUNT>
4

> <JCHEM_ATOM_COUNT>
66

> <JCHEM_AVERAGE_POLARIZABILITY>
49.28639489035574

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(1S,8S,10E,12S,13S,15R,16S,17S,18S)-18-benzyl-8,15,16-trimethyl-2,14-dioxa-19-azatetracyclo[10.8.0.0^{1,17}.0^{13,15}]icos-10-ene-3,7,20-trione

> <JCHEM_LOGP>
3.6196728323333334

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
5

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_ACIDIC>
13.029616675239744

> <JCHEM_PKA_STRONGEST_BASIC>
-4.20408836589641

> <JCHEM_POLAR_SURFACE_AREA>
85.0

> <JCHEM_REFRACTIVITY>
123.514

> <JCHEM_ROTATABLE_BOND_COUNT>
2

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
(1S,8S,10E,12S,13S,15R,16S,17S,18S)-18-benzyl-8,15,16-trimethyl-2,14-dioxa-19-azatetracyclo[10.8.0.0^{1,17}.0^{13,15}]icos-10-ene-3,7,20-trione

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 23-JAN-23   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   23-JAN-23         0                                  
HETATM    1  C   UNK     0       6.799  -6.361   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       6.095  -4.791   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       7.517  -4.320   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       7.914  -6.228   0.000  0.00  0.00           C+0
HETATM    5  O   UNK     0       8.939  -3.848   0.000  0.00  0.00           O+0
HETATM    6  C   UNK     0       7.570  -2.569   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       6.373  -2.144   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       7.704  -3.231   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       9.036  -2.311   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0      10.319  -3.163   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0      10.222  -4.700   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0      11.818  -5.384   0.000  0.00  0.00           C+0
HETATM   13  H   UNK     0       6.281  -0.607   0.000  0.00  0.00           H+0
HETATM   14  C   UNK     0       4.994  -2.830   0.000  0.00  0.00           C+0
HETATM   15  O   UNK     0       4.812  -3.940   0.000  0.00  0.00           O+0
HETATM   16  C   UNK     0       6.229  -5.453   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       6.085  -6.755   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0       7.368  -7.607   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       8.747  -6.922   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       8.843  -5.385   0.000  0.00  0.00           C+0
HETATM   21  O   UNK     0      10.295  -6.347   0.000  0.00  0.00           O+0
HETATM   22  O   UNK     0       7.763  -5.238   0.000  0.00  0.00           O+0
HETATM   23  C   UNK     0       4.946  -4.601   0.000  0.00  0.00           C+0
HETATM   24  H   UNK     0       4.572  -6.096   0.000  0.00  0.00           H+0
HETATM   25  C   UNK     0       3.407  -4.750   0.000  0.00  0.00           C+0
HETATM   26  N   UNK     0       2.581  -3.450   0.000  0.00  0.00           N+0
HETATM   27  C   UNK     0       3.562  -2.263   0.000  0.00  0.00           C+0
HETATM   28  O   UNK     0       3.156  -0.699   0.000  0.00  0.00           O+0
HETATM   29  C   UNK     0       2.711  -6.198   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0       1.195  -6.241   0.000  0.00  0.00           C+0
HETATM   31  C   UNK     0       0.462  -7.595   0.000  0.00  0.00           C+0
HETATM   32  C   UNK     0      -1.077  -7.638   0.000  0.00  0.00           C+0
HETATM   33  C   UNK     0      -1.884  -6.326   0.000  0.00  0.00           C+0
HETATM   34  C   UNK     0      -1.152  -4.972   0.000  0.00  0.00           C+0
HETATM   35  C   UNK     0       0.388  -4.929   0.000  0.00  0.00           C+0
CONECT    1    2                                                            
CONECT    2    1    3   23                                                  
CONECT    3    2    4    5    6                                             
CONECT    4    3                                                            
CONECT    5    3    6                                                       
CONECT    6    3    5    7                                                  
CONECT    7    6    8   13   14                                             
CONECT    8    7    9                                                       
CONECT    9    8   10                                                       
CONECT   10    9   11                                                       
CONECT   11   10   12   20                                                  
CONECT   12   11                                                            
CONECT   13    7                                                            
CONECT   14    7   15   23   27                                             
CONECT   15   14   16                                                       
CONECT   16   15   17   22                                                  
CONECT   17   16   18                                                       
CONECT   18   17   19                                                       
CONECT   19   18   20                                                       
CONECT   20   19   11   21                                                  
CONECT   21   20                                                            
CONECT   22   16                                                            
CONECT   23   14    2   24   25                                             
CONECT   24   23                                                            
CONECT   25   23   26   29                                                  
CONECT   26   25   27                                                       
CONECT   27   26   14   28                                                  
CONECT   28   27                                                            
CONECT   29   25   30                                                       
CONECT   30   29   31   35                                                  
CONECT   31   30   32                                                       
CONECT   32   31   33                                                       
CONECT   33   32   34                                                       
CONECT   34   33   35                                                       
CONECT   35   34   30                                                       
MASTER        0    0    0    0    0    0    0    0   35    0   78    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₂₇H₃₃NO₅

Average Mass

451.5630 Da

Monoisotopic Mass

451.23587 Da

IUPAC Name

(1S,8S,10E,12S,13S,15R,16S,17S,18S)-18-benzyl-8,15,16-trimethyl-2,14-dioxa-19-azatetracyclo[10.8.0.0^{1,17}.0^{13,15}]icos-10-ene-3,7,20-trione

Traditional Name

(1S,8S,10E,12S,13S,15R,16S,17S,18S)-18-benzyl-8,15,16-trimethyl-2,14-dioxa-19-azatetracyclo[10.8.0.0^{1,17}.0^{13,15}]icos-10-ene-3,7,20-trione

CAS Registry Number

Not Available

SMILES

[H][C@]12[C@H](CC3=CC=CC=C3)NC(=O)[C@]11OC(=O)CCCC(=O)[C@@H](C)C\C=C\[C@@]1([H])[C@@H]1O[C@]1(C)[C@H]2C

InChI Identifier

InChI=1S/C27H33NO5/c1-16-9-7-12-19-24-26(3,33-24)17(2)23-20(15-18-10-5-4-6-11-18)28-25(31)27(19,23)32-22(30)14-8-13-21(16)29/h4-7,10-12,16-17,19-20,23-24H,8-9,13-15H2,1-3H3,(H,28,31)/b12-7+/t16-,17-,19-,20-,23-,24-,26+,27+/m0/s1

InChI Key

RBPHNJVPPVVSAS-LWFLBTMNSA-N

Experimental Spectra

Spectrum Type	Description	Depositor Email	Depositor Organization	Depositor	Deposition Date	View
HMBC NMR	[¹H, ¹³C] NMR Spectrum (2D, 500 MHz, CDCl3, experimental)	1050955308@qq.com	ocean university of china	lk	2025-04-11	View Spectrum
HSQC NMR	[¹H, ¹³C] NMR Spectrum (2D, 500 MHz, CDCl3, experimental)	1050955308@qq.com	ocean university of china	lk	2025-04-11	View Spectrum
NOESY NMR	[¹H, ¹H] NMR Spectrum (2D, 500 MHz, CDCl3, experimental)	1050955308@qq.com	ocean university of china	lk	2025-04-11	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, CDCl3, experimental)	1050955308@qq.com	ocean university of china	lk	2025-04-11	View Spectrum
COSY NMR	[¹H, ¹H] NMR Spectrum (2D, 500 MHz, CDCl3, experimental)	1050955308@qq.com	ocean university of china	lk	2025-04-11	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 126 MHz, CDCl3, experimental)	1050955308@qq.com	ocean university of china	lk	2025-04-11	View Spectrum

Predicted Spectra

Not Available

Chemical Shift Submissions

Not Available

Species

Species of Origin

Species Name	Source	Reference
aspergillus templicola		Not Available

Chemical Taxonomy

Classification

Not classified

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	3.62	ChemAxon
pKa (Strongest Acidic)	13.03	ChemAxon
pKa (Strongest Basic)	-4.2	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	4	ChemAxon
Hydrogen Donor Count	1	ChemAxon
Polar Surface Area	85 Å²	ChemAxon
Rotatable Bond Count	2	ChemAxon
Refractivity	123.51 m³·mol⁻¹	ChemAxon
Polarizability	49.29 Å³	ChemAxon
Number of Rings	5	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	Yes	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

Showing NP-Card for Colachalasin D (NP0350934)

MOL for NP0350934 (Colachalasin D)

3D MOL for NP0350934 (Colachalasin D)

3D SDF for NP0350934 (Colachalasin D)

3D-SDF for NP0350934 (Colachalasin D)

PDB for NP0350934 (Colachalasin D)

3D PDB for NP0350934 (Colachalasin D)

SMILES for NP0350934 (Colachalasin D)

INCHI for NP0350934 (Colachalasin D)

Structure for NP0350934 (Colachalasin D)

3D Structure for NP0350934 (Colachalasin D)