MiMeDB: Showing metabocard for YM-266183 (MMDBc0004769)

Record Information

Version

2.0

Status

Detected and Quantified

Creation Date

2021-05-14 22:37:22 UTC

Update Date

2025-10-07 16:04:55 UTC

Metabolite ID

MMDBc0004769

Metabolite Identification

Common Name

YM-266183

Description

YM-266183 is a thiopeptide antibiotic, a chemical class known for its potent antimicrobial properties. Derived from Bacillus cereus isolated from the marine sponge Halichondria japonica, YM-266183 exhibits significant antibacterial activity against drug-resistant strains of bacteria, including nosocomial Gram-positive bacteria. Its structure features cyclic thiazole and pyridine moieties, along with several unusual amino acids, which contribute to its unique pharmacological profile. In vitro studies have demonstrated its efficacy against various pathogens, including its comparison to other thiazole antibiotics such as berninamycin and micrococcin P1 and P2, highlighting its potential as a therapeutic agent in combating resistant infections (PMID:21119308 ). The discovery of YM-266183, along with its counterpart YM-266184, underscores the importance of marine-derived compounds in the search for novel antimicrobial agents (PMID:12715872 ). These findings suggest that thiopeptides like YM-266183 could play a critical role in addressing the growing challenge of antibiotic resistance in clinical settings.

Structure

MOL SDF PDB SMILES InChI


  Mrv1652305152100372D          

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M  END


  Mrv1652305152100372D          

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    5.1822   -5.1017    0.0000 S   0  0  0  0  0  0  0  0  0  0  0  0
   -6.1668   -5.9897    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
    7.5675    0.9487    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
  8  1  1  0  0  0  0
  9  2  1  0  0  0  0
 11 10  2  0  0  0  0
 19  3  1  0  0  0  0
 19 12  1  0  0  0  0
 20  4  1  0  0  0  0
 21  5  1  0  0  0  0
 22 10  1  0  0  0  0
 23  8  2  0  0  0  0
 24  9  2  0  0  0  0
 25 11  1  0  0  0  0
 26 13  2  0  0  0  0
 27 15  2  0  0  0  0
 28 14  2  0  0  0  0
 29 17  2  0  0  0  0
 30 16  2  0  0  0  0
 31 18  2  0  0  0  0
 32 20  1  0  0  0  0
 33 21  1  0  0  0  0
 34 22  2  0  0  0  0
 34 26  1  0  0  0  0
 36 23  1  0  0  0  0
 37 27  1  0  0  0  0
 38 28  1  0  0  0  0
 39 29  1  0  0  0  0
 40 30  1  0  0  0  0
 41 32  1  0  0  0  0
 42 22  1  0  0  0  0
 43 24  1  0  0  0  0
 44 25  1  0  0  0  0
 45 31  1  0  0  0  0
 46 33  1  0  0  0  0
 47 35  1  0  0  0  0
 48  6  1  0  0  0  0
 48  7  1  0  0  0  0
 48 35  1  0  0  0  0
 49 12  1  4  0  0  0
 49 36  2  0  0  0  0
 50 25  2  0  0  0  0
 50 34  1  0  0  0  0
 51 23  1  4  0  0  0
 51 37  2  0  0  0  0
 52 24  1  4  0  0  0
 52 41  2  0  0  0  0
 53 26  1  0  0  0  0
 53 46  2  0  0  0  0
 54 28  1  0  0  0  0
 54 42  2  0  0  0  0
 55 30  1  0  0  0  0
 55 43  2  0  0  0  0
 56 27  1  0  0  0  0
 56 45  2  0  0  0  0
 57 29  1  0  0  0  0
 57 47  2  0  0  0  0
 58 31  1  0  0  0  0
 58 44  2  0  0  0  0
 59 32  1  4  0  0  0
 59 38  2  0  0  0  0
 60 33  1  4  0  0  0
 60 39  2  0  0  0  0
 61 35  1  4  0  0  0
 61 40  2  0  0  0  0
 62 19  2  0  0  0  0
 63 20  1  0  0  0  0
 64 21  1  0  0  0  0
 65 36  1  0  0  0  0
 66 37  1  0  0  0  0
 67 38  1  0  0  0  0
 68 39  1  0  0  0  0
 69 40  1  0  0  0  0
 70 41  1  0  0  0  0
 71 48  1  0  0  0  0
 72 14  1  0  0  0  0
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 73 16  1  0  0  0  0
 73 43  1  0  0  0  0
 74 15  1  0  0  0  0
 74 45  1  0  0  0  0
 75 18  1  0  0  0  0
 75 44  1  0  0  0  0
 76 13  1  0  0  0  0
 76 46  1  0  0  0  0
 77 17  1  0  0  0  0
 77 47  1  0  0  0  0
 78  8  1  0  0  0  0
 79  9  1  0  0  0  0
M  END
> <DATABASE_ID>
MMDBc0004769

> <DATABASE_NAME>
MIME

> <SMILES>
[H]\C(C)=C(/N=C(O)C1=CSC(=N1)C1=CSC(=N1)C1=NC2=C(C=C1)C1=NC(=CS1)C(O)=NC(C(C)O)C(O)=N\C(=C(\[H])C)C1=NC(=CS1)C(O)=NC(C1=NC(=CS1)C(O)=NC(C(C)O)C1=NC2=CS1)C(C)(C)O)C(O)=NCC(C)=O

> <INCHI_IDENTIFIER>
InChI=1S/C48H47N13O10S6/c1-8-23(36(65)49-12-19(3)62)51-37(66)27-15-74-45(56-27)31-18-75-44(58-31)25-11-10-22-34(50-25)26-13-76-46(53-26)33(21(5)64)60-39(68)29-17-77-47(57-29)35(48(6,7)71)61-40(69)30-16-73-43(55-30)24(9-2)52-41(70)32(20(4)63)59-38(67)28-14-72-42(22)54-28/h8-11,13-18,20-21,32-33,35,63-64,71H,12H2,1-7H3,(H,49,65)(H,51,66)(H,52,70)(H,59,67)(H,60,68)(H,61,69)/b23-8+,24-9-

> <INCHI_KEY>
QFPBQHRZGAWLEX-AUVWRIHKSA-N

> <FORMULA>
C48H47N13O10S6

> <MOLECULAR_WEIGHT>
1158.35

> <EXACT_MASS>
1157.189311809

> <JCHEM_ACCEPTOR_COUNT>
23

> <JCHEM_ATOM_COUNT>
124

> <JCHEM_AVERAGE_POLARIZABILITY>
116.28599648147936

> <JCHEM_BIOAVAILABILITY>
0

> <JCHEM_DONOR_COUNT>
9

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(2E)-2-{[(2-{2-[(26Z)-26-ethylidene-14,21,28,31-tetrahydroxy-12,29-bis(1-hydroxyethyl)-19-(2-hydroxypropan-2-yl)-10,17,24,34-tetrathia-6,13,20,27,30,35,36,37,38-nonaazahexacyclo[30.2.1.1^{8,11}.1^{15,18}.1^{22,25}.0^{2,7}]octatriaconta-1(35),2(7),3,5,8,11(38),13,15,18(37),20,22,25(36),27,30,32-pentadecaen-5-yl]-1,3-thiazol-4-yl}-1,3-thiazol-4-yl)(hydroxy)methylidene]amino}-N-(2-oxopropyl)but-2-enimidic acid

> <ALOGPS_LOGP>
4.53

> <JCHEM_LOGP>
6.770157920950351

> <ALOGPS_LOGS>
-5.22

> <JCHEM_MDDR_LIKE_RULE>
1

> <JCHEM_NUMBER_OF_RINGS>
8

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
4.425921447528368

> <JCHEM_PKA_STRONGEST_ACIDIC>
1.4076852292316717

> <JCHEM_PKA_STRONGEST_BASIC>
3.277839897580961

> <JCHEM_POLAR_SURFACE_AREA>
363.5300000000001

> <JCHEM_REFRACTIVITY>
319.83079999999995

> <JCHEM_ROTATABLE_BOND_COUNT>
10

> <JCHEM_RULE_OF_FIVE>
0

> <ALOGPS_SOLUBILITY>
6.92e-03 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(2E)-2-{[(2-{2-[(26Z)-26-ethylidene-14,21,28,31-tetrahydroxy-12,29-bis(1-hydroxyethyl)-19-(2-hydroxypropan-2-yl)-10,17,24,34-tetrathia-6,13,20,27,30,35,36,37,38-nonaazahexacyclo[30.2.1.1^{8,11}.1^{15,18}.1^{22,25}.0^{2,7}]octatriaconta-1(35),2(7),3,5,8,11(38),13,15,18(37),20,22,25(36),27,30,32-pentadecaen-5-yl]-1,3-thiazol-4-yl}-1,3-thiazol-4-yl)(hydroxy)methylidene]amino}-N-(2-oxopropyl)but-2-enimidic acid

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 15-MAY-21   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   15-MAY-21         0                                  
HETATM    1  C   UNK     0     -10.127 -13.461   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      12.494   3.881   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      -4.726 -16.422   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       6.740   6.298   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       2.069 -10.139   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      13.084  -9.232   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0      13.097  -7.055   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0     -10.161 -11.921   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0      12.701   2.355   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0      -0.824   0.446   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0      -2.278  -0.062   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0      -6.110 -14.142   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0      -0.778  -5.155   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       3.447   1.216   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0      -8.862  -6.366   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0      14.065  -1.640   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0       8.200  -9.972   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0      -6.509  -2.138   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0      -6.076 -15.682   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       7.907   5.293   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0       1.503  -8.707   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0       0.343  -0.559   0.000  0.00  0.00           C+0
HETATM   23  C   UNK     0      -8.845 -11.122   0.000  0.00  0.00           C+0
HETATM   24  C   UNK     0      11.483   1.412   0.000  0.00  0.00           C+0
HETATM   25  C   UNK     0      -2.564  -1.575   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0       0.369  -4.127   0.000  0.00  0.00           C+0
HETATM   27  C   UNK     0      -7.596  -7.244   0.000  0.00  0.00           C+0
HETATM   28  C   UNK     0       2.756   2.593   0.000  0.00  0.00           C+0
HETATM   29  C   UNK     0       7.318  -8.710   0.000  0.00  0.00           C+0
HETATM   30  C   UNK     0      12.706  -2.364   0.000  0.00  0.00           C+0
HETATM   31  C   UNK     0      -6.001  -3.592   0.000  0.00  0.00           C+0
HETATM   32  C   UNK     0       7.620   3.780   0.000  0.00  0.00           C+0
HETATM   33  C   UNK     0       2.460  -7.501   0.000  0.00  0.00           C+0
HETATM   34  C   UNK     0       0.056  -2.072   0.000  0.00  0.00           C+0
HETATM   35  C   UNK     0      10.920  -7.041   0.000  0.00  0.00           C+0
HETATM   36  C   UNK     0      -7.494 -11.862   0.000  0.00  0.00           C+0
HETATM   37  C   UNK     0      -7.562  -8.783   0.000  0.00  0.00           C+0
HETATM   38  C   UNK     0       4.567   3.614   0.000  0.00  0.00           C+0
HETATM   39  C   UNK     0       5.240  -8.773   0.000  0.00  0.00           C+0
HETATM   40  C   UNK     0      12.517  -4.434   0.000  0.00  0.00           C+0
HETATM   41  C   UNK     0       9.088   3.313   0.000  0.00  0.00           C+0
HETATM   42  C   UNK     0       0.984   0.842   0.000  0.00  0.00           C+0
HETATM   43  C   UNK     0      12.271   0.090   0.000  0.00  0.00           C+0
HETATM   44  C   UNK     0      -4.018  -2.083   0.000  0.00  0.00           C+0
HETATM   45  C   UNK     0      -6.879  -4.857   0.000  0.00  0.00           C+0
HETATM   46  C   UNK     0       1.378  -6.405   0.000  0.00  0.00           C+0
HETATM   47  C   UNK     0       9.701  -7.983   0.000  0.00  0.00           C+0
HETATM   48  C   UNK     0      12.002  -8.137   0.000  0.00  0.00           C+0
HETATM   49  N   UNK     0      -7.460 -13.402   0.000  0.00  0.00           N+0
HETATM   50  N   UNK     0      -1.398  -2.580   0.000  0.00  0.00           N+0
HETATM   51  N   UNK     0      -8.879  -9.582   0.000  0.00  0.00           N+0
HETATM   52  N   UNK     0      10.401   2.508   0.000  0.00  0.00           N+0
HETATM   53  N   UNK     0       1.701  -4.900   0.000  0.00  0.00           N+0
HETATM   54  N   UNK     0       1.234   2.361   0.000  0.00  0.00           N+0
HETATM   55  N   UNK     0      11.597  -1.295   0.000  0.00  0.00           N+0
HETATM   56  N   UNK     0      -6.371  -6.311   0.000  0.00  0.00           N+0
HETATM   57  N   UNK     0       8.246  -7.481   0.000  0.00  0.00           N+0
HETATM   58  N   UNK     0      -4.462  -3.558   0.000  0.00  0.00           N+0
HETATM   59  N   UNK     0       6.084   3.882   0.000  0.00  0.00           N+0
HETATM   60  N   UNK     0       3.773  -8.306   0.000  0.00  0.00           N+0
HETATM   61  N   UNK     0      11.877  -5.835   0.000  0.00  0.00           N+0
HETATM   62  O   UNK     0      -7.392 -16.481   0.000  0.00  0.00           O+0
HETATM   63  O   UNK     0       9.361   5.801   0.000  0.00  0.00           O+0
HETATM   64  O   UNK     0      -0.021  -8.482   0.000  0.00  0.00           O+0
HETATM   65  O   UNK     0      -6.178 -11.063   0.000  0.00  0.00           O+0
HETATM   66  O   UNK     0      -6.212  -9.524   0.000  0.00  0.00           O+0
HETATM   67  O   UNK     0       4.047   5.063   0.000  0.00  0.00           O+0
HETATM   68  O   UNK     0       5.027 -10.298   0.000  0.00  0.00           O+0
HETATM   69  O   UNK     0      14.006  -4.830   0.000  0.00  0.00           O+0
HETATM   70  O   UNK     0       9.728   4.713   0.000  0.00  0.00           O+0
HETATM   71  O   UNK     0      10.906  -9.219   0.000  0.00  0.00           O+0
HETATM   72  S   UNK     0       2.352   0.134   0.000  0.00  0.00           S+0
HETATM   73  S   UNK     0      13.797  -0.124   0.000  0.00  0.00           S+0
HETATM   74  S   UNK     0      -8.418  -4.891   0.000  0.00  0.00           S+0
HETATM   75  S   UNK     0      -5.284  -1.205   0.000  0.00  0.00           S+0
HETATM   76  S   UNK     0      -0.154  -6.563   0.000  0.00  0.00           S+0
HETATM   77  S   UNK     0       9.673  -9.523   0.000  0.00  0.00           S+0
HETATM   78  H   UNK     0     -11.511 -11.181   0.000  0.00  0.00           H+0
HETATM   79  H   UNK     0      14.126   1.771   0.000  0.00  0.00           H+0
CONECT    1    8                                                            
CONECT    2    9                                                            
CONECT    3   19                                                            
CONECT    4   20                                                            
CONECT    5   21                                                            
CONECT    6   48                                                            
CONECT    7   48                                                            
CONECT    8    1   23   78                                                  
CONECT    9    2   24   79                                                  
CONECT   10   11   22                                                       
CONECT   11   10   25                                                       
CONECT   12   19   49                                                       
CONECT   13   26   76                                                       
CONECT   14   28   72                                                       
CONECT   15   27   74                                                       
CONECT   16   30   73                                                       
CONECT   17   29   77                                                       
CONECT   18   31   75                                                       
CONECT   19    3   12   62                                                  
CONECT   20    4   32   63                                                  
CONECT   21    5   33   64                                                  
CONECT   22   10   34   42                                                  
CONECT   23    8   36   51                                                  
CONECT   24    9   43   52                                                  
CONECT   25   11   44   50                                                  
CONECT   26   13   34   53                                                  
CONECT   27   15   37   56                                                  
CONECT   28   14   38   54                                                  
CONECT   29   17   39   57                                                  
CONECT   30   16   40   55                                                  
CONECT   31   18   45   58                                                  
CONECT   32   20   41   59                                                  
CONECT   33   21   46   60                                                  
CONECT   34   22   26   50                                                  
CONECT   35   47   48   61                                                  
CONECT   36   23   49   65                                                  
CONECT   37   27   51   66                                                  
CONECT   38   28   59   67                                                  
CONECT   39   29   60   68                                                  
CONECT   40   30   61   69                                                  
CONECT   41   32   52   70                                                  
CONECT   42   22   54   72                                                  
CONECT   43   24   55   73                                                  
CONECT   44   25   58   75                                                  
CONECT   45   31   56   74                                                  
CONECT   46   33   53   76                                                  
CONECT   47   35   57   77                                                  
CONECT   48    6    7   35   71                                             
CONECT   49   12   36                                                       
CONECT   50   25   34                                                       
CONECT   51   23   37                                                       
CONECT   52   24   41                                                       
CONECT   53   26   46                                                       
CONECT   54   28   42                                                       
CONECT   55   30   43                                                       
CONECT   56   27   45                                                       
CONECT   57   29   47                                                       
CONECT   58   31   44                                                       
CONECT   59   32   38                                                       
CONECT   60   33   39                                                       
CONECT   61   35   40                                                       
CONECT   62   19                                                            
CONECT   63   20                                                            
CONECT   64   21                                                            
CONECT   65   36                                                            
CONECT   66   37                                                            
CONECT   67   38                                                            
CONECT   68   39                                                            
CONECT   69   40                                                            
CONECT   70   41                                                            
CONECT   71   48                                                            
CONECT   72   14   42                                                       
CONECT   73   16   43                                                       
CONECT   74   15   45                                                       
CONECT   75   18   44                                                       
CONECT   76   13   46                                                       
CONECT   77   17   47                                                       
CONECT   78    8                                                            
CONECT   79    9                                                            
MASTER        0    0    0    0    0    0    0    0   79    0  172    0
END

Synonyms

Value	Source
(2E)-2-{[(2-{2-[(26Z)-26-ethylidene-14,21,28,31-tetrahydroxy-12,29-bis(1-hydroxyethyl)-19-(2-hydroxypropan-2-yl)-10,17,24,34-tetrathia-6,13,20,27,30,35,36,37,38-nonaazahexacyclo[30.2.1.1,.1,.1,.0,]octatriaconta-1(35),2(7),3,5,8,11(38),13,15,18(37),20,22,25(36),27,30,32-pentadecaen-5-yl]-1,3-thiazol-4-yl}-1,3-thiazol-4-yl)(hydroxy)methylidene]amino}-N-(2-oxopropyl)but-2-enimidate	Generator

Molecular Formula

C₄₈H₄₇N₁₃O₁₀S₆

Average Mass

1158.35

Monoisotopic Mass

1157.189311809

IUPAC Name

(2E)-2-{[(2-{2-[(26Z)-26-ethylidene-14,21,28,31-tetrahydroxy-12,29-bis(1-hydroxyethyl)-19-(2-hydroxypropan-2-yl)-10,17,24,34-tetrathia-6,13,20,27,30,35,36,37,38-nonaazahexacyclo[30.2.1.1^{8,11}.1^{15,18}.1^{22,25}.0^{2,7}]octatriaconta-1(35),2(7),3,5,8,11(38),13,15,18(37),20,22,25(36),27,30,32-pentadecaen-5-yl]-1,3-thiazol-4-yl}-1,3-thiazol-4-yl)(hydroxy)methylidene]amino}-N-(2-oxopropyl)but-2-enimidic acid

Traditional Name

CAS Registry Number

Not Available

SMILES

[H]\C(C)=C(/N=C(O)C1=CSC(=N1)C1=CSC(=N1)C1=NC2=C(C=C1)C1=NC(=CS1)C(O)=NC(C(C)O)C(O)=N\C(=C(\[H])C)C1=NC(=CS1)C(O)=NC(C1=NC(=CS1)C(O)=NC(C(C)O)C1=NC2=CS1)C(C)(C)O)C(O)=NCC(C)=O

InChI Identifier

InChI=1S/C48H47N13O10S6/c1-8-23(36(65)49-12-19(3)62)51-37(66)27-15-74-45(56-27)31-18-75-44(58-31)25-11-10-22-34(50-25)26-13-76-46(53-26)33(21(5)64)60-39(68)29-17-77-47(57-29)35(48(6,7)71)61-40(69)30-16-73-43(55-30)24(9-2)52-41(70)32(20(4)63)59-38(67)28-14-72-42(22)54-28/h8-11,13-18,20-21,32-33,35,63-64,71H,12H2,1-7H3,(H,49,65)(H,51,66)(H,52,70)(H,59,67)(H,60,68)(H,61,69)/b23-8+,24-9-

InChI Key

QFPBQHRZGAWLEX-AUVWRIHKSA-N

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as macrolactams. These are cyclic amides of amino carboxylic acids, having a 1-azacycloalkan-2-one structure, or analogues having unsaturation or heteroatoms replacing one or more carbon atoms of the ring. They are nitrogen analogues (the a nitrogen atom replacing the o atom of the cyclic carboxylic acid group ) of the naturally occurring macrolides.

Kingdom

Organic compounds

Super Class

Phenylpropanoids and polyketides

Class

Macrolactams

Sub Class

Not Available

Direct Parent

Macrolactams

Alternative Parents

Substituents

Macrolactam
N-acyl-alpha amino acid or derivatives
Alpha-amino acid amide
Alpha-amino acid or derivatives
2-heteroaryl carboxamide
Thiazolecarboxylic acid or derivatives
Thiazolecarboxamide
2,4-disubstituted 1,3-thiazole
N-acyl-amine
Pyridine
Azole
Heteroaromatic compound
Thiazole
Tertiary alcohol
Carboxamide group
Ketone
Lactam
Secondary carboxylic acid amide
Secondary alcohol
Azacycle
Carboxylic acid derivative
Organoheterocyclic compound
Organic oxygen compound
Alcohol
Organic nitrogen compound
Carbonyl group
Hydrocarbon derivative
Organic oxide
Organonitrogen compound
Organooxygen compound
Aromatic heteropolycyclic compound

Molecular Framework

Aromatic heteropolycyclic compounds

External Descriptors

Not Available

Functional Ontology

Not Available

Physical Properties

State

Expected Solid

Predicted Properties

Property	Value	Source
Water Solubility	0.0069 g/L	ALOGPS
logP	4.53	ALOGPS
logP	6.77	ChemAxon
logS	-5.2	ALOGPS
pKa (Strongest Acidic)	1.41	ChemAxon
pKa (Strongest Basic)	3.28	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	23	ChemAxon
Hydrogen Donor Count	9	ChemAxon
Polar Surface Area	363.53 Å²	ChemAxon
Rotatable Bond Count	10	ChemAxon
Refractivity	319.83 m³·mol⁻¹	ChemAxon
Polarizability	116.29 Å³	ChemAxon
Number of Rings	8	ChemAxon
Bioavailability	No	ChemAxon
Rule of Five	No	ChemAxon
Ghose Filter	No	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	Yes	ChemAxon

Spectra

Spectrum Type	Description	Splash Key	Deposition Date	View
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Positive	Not Available	2022-08-10	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Positive	Not Available	2022-08-10	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Positive	Not Available	2022-08-10	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Negative	Not Available	2022-08-10	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Negative	Not Available	2022-08-10	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Negative	Not Available	2022-08-10	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 100 MHz, H₂O, predicted)		2022-08-21	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, H₂O, predicted)		2022-08-21	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 1000 MHz, H₂O, predicted)		2022-08-21	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, H₂O, predicted)		2022-08-21	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 200 MHz, H₂O, predicted)		2022-08-21	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, H₂O, predicted)		2022-08-21	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 300 MHz, H₂O, predicted)		2022-08-21	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, H₂O, predicted)		2022-08-21	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 400 MHz, H₂O, predicted)		2022-08-21	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, H₂O, predicted)		2022-08-21	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 500 MHz, H₂O, predicted)		2022-08-21	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, H₂O, predicted)		2022-08-21	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 600 MHz, H₂O, predicted)		2022-08-21	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, H₂O, predicted)		2022-08-21	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 700 MHz, H₂O, predicted)		2022-08-21	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, H₂O, predicted)		2022-08-21	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 800 MHz, H₂O, predicted)		2022-08-21	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, H₂O, predicted)		2022-08-21	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 900 MHz, H₂O, predicted)		2022-08-21	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, H₂O, predicted)		2022-08-21	View Spectrum

Chromatographic Retention Times and Retention Indices

Retention Times

Chromatography Type	Technique	Column	Deposition Date	Retention Time (s)
Liquid Chromatography	HILIC	Waters Acquity UPLC-BEH Amide column (eluted)	2025-10-23	18.8
Liquid Chromatography	HILIC	Accucore 150 Amide HILIC (eluted)	2025-10-23	65.8
Liquid Chromatography	Reversed-phase	Hypersil Gold 1.9 µm C18 (eluted)	2025-10-23	682.6
Liquid Chromatography	Reversed-phase	Agilent Zorbax Eclipse Plus C18 (2.1 mm x 150 mm, 3.5 um) (eluted)	2025-10-23	835.9
Liquid Chromatography	Reversed-phase	XBridge C18 3.5u 2.1x50 mm (eluted)	2025-10-23	773.5
Liquid Chromatography	Reversed-phase	Ascentis Express C18 (eluted)	2025-10-23	122.7
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC HSS T3 C18 (eluted)	2025-10-23	3888.0
Liquid Chromatography	HILIC	Merck SeQuant ZIC-HILIC (eluted)	2025-10-23	133.8
Liquid Chromatography	HILIC	Merck SeQuant ZIC-pHILIC (eluted)	2025-10-23	470.0
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC HSS T3 C18 (eluted)	2025-10-23	383.6
Liquid Chromatography	HILIC	Merck SeQuant ZIC-HILIC (eluted)	2025-10-23	101.3
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC HSS T3 C18 (eluted)	2025-10-23	115.2
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC BEH C18 (eluted)	2025-10-23	195.1
Liquid Chromatography	HILIC	Merck SeQuant ZIC-pHILIC column (eluted)	2025-10-23	11.4
Liquid Chromatography	HILIC	Merck SeQuant ZIC-pHILIC column (eluted)	2025-10-23	133.9
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC BEH C18 (eluted)	2025-10-23	133.0
Liquid Chromatography	Reversed-phase	Waters ACQUITY UPLC BEH C18 (eluted)	2025-10-23	530.3
Liquid Chromatography	Reversed-phase	Kinetex Core-Shell C18 2.6 um, 3.0 x 100 mm, Phenomenex (eluted)	2025-10-23	1620.6
Liquid Chromatography	Reversed-phase	Waters Atlantis T3 (2.1 x 150 mm, 5 um) (eluted)	2025-10-23	1278.7

Retention Indices

Not Available

Biological Properties

Cellular Locations

Not Available

Biospecimen Locations

Not Available

Tissue Locations

Not Available

Associated OMIM IDs

114500 (Colorectal cancer)
610247 (Eosinophilic esophagitis)

Human Proteins and Enzymes

Protein ID	Protein Name	Protein Type	Uniprot ID	Species

Human Pathways

Pathways

Name	SMPDB/PathBank

Microbial Pathways

Pathways

Not Available

Metabolic Reactions

Reactions

This table shows at most 20 reactions. For the full list of associated reactions:

See All Associated Reactions

Reaction ID	Precursor	Product	Enzyme	Reaction Type	Data Source	Reference

Health Effects and Bioactivity

Health Outcome/Bioactivity	Metabolite Response/Effect	Evidence Type	Host and Biospecimen	Data Source	Reference

Microbial Sources

Superkingdom/Kingdom	Phylum	Total species	Hosts and Body Sites	Microbial Links
Bacteria/Eubacteria	Firmicutes	1	Human	Metabolic reconstruction

Exposure Sources

Other Exposures

Source Type	Data Source	Reference

Host Biospecimen and Location

Host and Biospecimen	Status	Mean	Std	Min	Max	Units	Age	Sex	Health Condition	Data Source	Reference

External Links

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FooDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

78443973

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

101237083

PDB ID

Not Available

ChEBI ID

Not Available

Food Biomarker Ontology

Not Available

CMMC Knowledgebase

Not Available

General References

van Santen JA, Poynton EF, Iskakova D, McMann E, Alsup TA, Clark TN, Fergusson CH, Fewer DP, Hughes AH, McCadden CA, Parra J, Soldatou S, Rudolf JD, Janssen EM, Duncan KR, Linington RG: The Natural Products Atlas 2.0: a database of microbially-derived natural products. Nucleic Acids Res. 2022 Jan 7;50(D1):D1317-D1323. doi: 10.1093/nar/gkab941. [PubMed:34718710 ]

Showing metabocard for YM-266183 (MMDBc0004769)

MOL for #<Metabolite:0x00007f9ad0a09c28>

3D MOL for #<Metabolite:0x00007f9ad0a09c28>

3D SDF for #<Metabolite:0x00007f9ad0a09c28>

3D-SDF for #<Metabolite:0x00007f9ad0a09c28>

PDB for #<Metabolite:0x00007f9ad0a09c28>

3D PDB for #<Metabolite:0x00007f9ad0a09c28>

SMILES for #<Metabolite:0x00007f9ad0a09c28>

INCHI for #<Metabolite:0x00007f9ad0a09c28>

Structure for #<Metabolite:0x00007f9ad0a09c28>

3D Structure for #<Metabolite:0x00007f9ad0a09c28>