NP-MRD: Showing NP-Card for Saikosaponin B3 (NP0137334)

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Record Information

Version

2.0

Created at

2022-05-30 16:49:16 UTC

Updated at

2022-05-30 16:49:16 UTC

NP-MRD ID

NP0137334

Secondary Accession Numbers

None

Natural Product Identification

Common Name

Saikosaponin B3

Description

2-[(3,5-Dihydroxy-2-{[8-hydroxy-4,8a-bis(hydroxymethyl)-14-methoxy-4,6a,6b,11,11,14b-hexamethyl-1,2,3,4,4a,5,6,6a,6b,7,8,8a,9,10,11,12,12a,14,14a,14b-icosahydropicen-3-yl]oxy}-6-methyloxan-4-yl)oxy]-6-(hydroxymethyl)oxane-3,4,5-triol belongs to the class of organic compounds known as triterpene saponins. These are glycosylated derivatives of triterpene sapogenins. The sapogenin moiety backbone is usually based on the oleanane, ursane, taraxastane, bauerane, lanostane, lupeol, lupane, dammarane, cycloartane, friedelane, hopane, 9b,19-cyclo-lanostane, cycloartane, or cycloartanol skeleton. Saikosaponin B3 is found in Bupleurum falcatum, Bupleurum marginatum and Clinopodium micranthum. 2-[(3,5-Dihydroxy-2-{[8-hydroxy-4,8a-bis(hydroxymethyl)-14-methoxy-4,6a,6b,11,11,14b-hexamethyl-1,2,3,4,4a,5,6,6a,6b,7,8,8a,9,10,11,12,12a,14,14a,14b-icosahydropicen-3-yl]oxy}-6-methyloxan-4-yl)oxy]-6-(hydroxymethyl)oxane-3,4,5-triol is an extremely weak basic (essentially neutral) compound (based on its pKa).

Structure

MOL 3D MOL SDF PDB SMILES InChI


  Mrv1533004161521352D          

 57 63  0  0  0  0            999 V2000
    2.7770    2.5559    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.3645    1.8414    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.7770    1.1270    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.6020    1.1270    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.0145    0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.8395    0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.2520    1.1270    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.0770    1.1270    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.8522    1.4091    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.9337    1.9394    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.4895    0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.0770   -0.3020    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.2520   -0.3020    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.6645   -1.0164    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.4895   -1.0164    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.8395   -1.0164    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.2520   -1.7309    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.0145   -1.0164    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.6020   -0.3020    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1895   -1.0164    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.7770   -0.3020    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6907   -1.1225    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.3645   -1.0164    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5395   -1.0164    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1270   -0.3020    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3020   -0.3020    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4452   -1.1144    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4733   -0.5841    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6165   -1.3966    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1105    0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.3020    1.1270    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1270    1.1270    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5395    0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.9520    1.1270    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.3645    0.4125    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9355    0.4125    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3480    1.1270    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1730    1.1270    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5855    1.8414    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4105    1.8414    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1730    2.5559    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5855    3.2704    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3480    2.5559    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9355    3.2704    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3480    3.9849    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1730    3.9849    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5855    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4105    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.8230    5.4138    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1730    5.4138    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5855    6.1283    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3480    5.4138    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9355    6.1283    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9355    4.6993    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1105    4.6993    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9355    1.8414    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1105    1.8414    0.0000 O   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  1  0  0  0  0
  4  5  2  0  0  0  0
  5  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
  8 10  1  0  0  0  0
  8 11  1  0  0  0  0
 11 12  1  0  0  0  0
 12 13  1  0  0  0  0
  6 13  1  0  0  0  0
 13 14  1  0  0  0  0
 14 15  1  0  0  0  0
 13 16  1  0  0  0  0
 16 17  1  0  0  0  0
 16 18  1  0  0  0  0
 18 19  1  0  0  0  0
  5 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
 21 23  1  0  0  0  0
 23 24  1  0  0  0  0
 24 25  1  0  0  0  0
 25 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
 26 30  1  0  0  0  0
 30 31  1  0  0  0  0
 31 32  1  0  0  0  0
 32 33  1  0  0  0  0
 25 33  1  0  0  0  0
 33 34  1  0  0  0  0
 33 35  1  0  0  0  0
  3 35  1  0  0  0  0
 21 35  1  0  0  0  0
 30 36  1  0  0  0  0
 36 37  1  0  0  0  0
 37 38  1  0  0  0  0
 38 39  1  0  0  0  0
 39 40  1  0  0  0  0
 39 41  1  0  0  0  0
 41 42  1  0  0  0  0
 41 43  1  0  0  0  0
 43 44  1  0  0  0  0
 44 45  1  0  0  0  0
 45 46  1  0  0  0  0
 46 47  1  0  0  0  0
 47 48  1  0  0  0  0
 48 49  1  0  0  0  0
 47 50  1  0  0  0  0
 50 51  1  0  0  0  0
 50 52  1  0  0  0  0
 52 53  1  0  0  0  0
 52 54  1  0  0  0  0
 45 54  1  0  0  0  0
 54 55  1  0  0  0  0
 43 56  1  0  0  0  0
 37 56  1  0  0  0  0
 56 57  1  0  0  0  0
M  END

     RDKit          3D

129135  0  0  0  0  0  0  0  0999 V2000
   -2.4939   -3.6321    2.2698 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7014   -2.9440    1.1087 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0794   -1.6377    1.3571 C   0  0  2  0  0  0  0  0  0  0  0  0
   -4.5623   -1.6138    0.9978 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.1337   -0.4094    0.9866 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.6162   -0.3619    0.6217 C   0  0  2  0  0  0  0  0  0  0  0  0
   -6.6758   -0.9644   -0.7420 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.7791   -0.5641   -1.6325 C   0  0  0  0  0  0  0  0  0  0  0  0
   -8.5023   -1.7662   -2.2569 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.2008    0.1997   -2.8359 C   0  0  0  0  0  0  0  0  0  0  0  0
   -8.8267    0.3246   -1.0487 C   0  0  0  0  0  0  0  0  0  0  0  0
   -8.1531    1.4165   -0.3013 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.2863    0.9094    0.8560 C   0  0  1  0  0  0  0  0  0  0  0  0
   -8.2969    0.7861    2.0145 C   0  0  0  0  0  0  0  0  0  0  0  0
   -9.2723   -0.1425    1.7816 O   0  0  0  0  0  0  0  0  0  0  0  0
   -6.4179    2.0753    1.2473 C   0  0  2  0  0  0  0  0  0  0  0  0
   -6.9458    3.2907    0.7281 O   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0244    1.9998    0.7588 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3408    0.7737    1.3373 C   0  0  1  0  0  0  0  0  0  0  0  0
   -4.4934    0.9566    2.8587 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8801    0.7484    0.9494 C   0  0  2  0  0  0  0  0  0  0  0  0
   -2.0854    1.2829    2.0994 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6904    1.6524   -0.2645 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2514    1.6214   -0.7352 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7380    0.2432   -1.0601 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.7136    0.3193   -1.3743 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.0924   -0.5725   -2.5792 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1546    1.7052   -1.8671 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4965    2.0779   -3.0391 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.6589   -0.0707   -0.2957 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.9520   -0.1834   -0.7785 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.8755    0.5832   -0.1020 C   0  0  2  0  0  0  0  0  0  0  0  0
    4.5491    1.5108   -0.8655 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.3703    0.9696   -1.8284 C   0  0  2  0  0  0  0  0  0  0  0  0
    5.0131    1.4409   -3.2240 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.4817   -0.5369   -1.7632 C   0  0  1  0  0  0  0  0  0  0  0  0
    6.5698   -0.8724   -2.6054 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.8866   -0.9108   -0.3604 C   0  0  1  0  0  0  0  0  0  0  0  0
    7.1921   -0.4907   -0.1973 O   0  0  0  0  0  0  0  0  0  0  0  0
    8.1019   -1.4892    0.0523 C   0  0  2  0  0  0  0  0  0  0  0  0
    8.5565   -1.2078    1.3744 O   0  0  0  0  0  0  0  0  0  0  0  0
    8.9362    0.1316    1.3639 C   0  0  1  0  0  0  0  0  0  0  0  0
    9.0301    0.7139    2.7598 C   0  0  0  0  0  0  0  0  0  0  0  0
    9.9475    0.0738    3.5664 O   0  0  0  0  0  0  0  0  0  0  0  0
   10.2258    0.3100    0.6002 C   0  0  2  0  0  0  0  0  0  0  0  0
   10.5132    1.6806    0.5870 O   0  0  0  0  0  0  0  0  0  0  0  0
    9.9765   -0.1061   -0.8477 C   0  0  1  0  0  0  0  0  0  0  0  0
   11.2236   -0.2299   -1.4531 O   0  0  0  0  0  0  0  0  0  0  0  0
    9.3461   -1.4862   -0.7698 C   0  0  2  0  0  0  0  0  0  0  0  0
    9.2776   -2.1405   -1.9762 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.9284   -0.2588    0.5890 C   0  0  1  0  0  0  0  0  0  0  0  0
    5.5674    0.4668    1.5904 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.2134   -1.3790    0.3485 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1266   -0.9983    1.0160 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1379   -0.8008   -0.0555 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.2143   -2.1296   -0.8361 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5043   -0.5962    0.4737 C   0  0  1  0  0  0  0  0  0  0  0  0
   -3.4287   -3.6700    2.8927 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7176   -3.2267    2.9166 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1661   -4.6772    1.9939 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0345   -1.4903    2.4327 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.1206   -2.5062    0.7674 H   0  0  0  0  0  0  0  0  0  0  0  0
   -7.0490   -1.1311    1.3359 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.7408   -2.0832   -0.6125 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.6894   -0.8575   -1.2939 H   0  0  0  0  0  0  0  0  0  0  0  0
   -7.9096   -2.0924   -3.1535 H   0  0  0  0  0  0  0  0  0  0  0  0
   -9.4966   -1.4668   -2.5995 H   0  0  0  0  0  0  0  0  0  0  0  0
   -8.5349   -2.5897   -1.5147 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.3601    0.8335   -2.4724 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.8422   -0.5061   -3.6183 H   0  0  0  0  0  0  0  0  0  0  0  0
   -7.9699    0.8449   -3.2819 H   0  0  0  0  0  0  0  0  0  0  0  0
   -9.3688    0.8095   -1.9025 H   0  0  0  0  0  0  0  0  0  0  0  0
   -9.5505   -0.2806   -0.5128 H   0  0  0  0  0  0  0  0  0  0  0  0
   -8.8769    2.1766    0.1008 H   0  0  0  0  0  0  0  0  0  0  0  0
   -7.4722    1.9451   -0.9796 H   0  0  0  0  0  0  0  0  0  0  0  0
   -7.7927    0.6124    2.9809 H   0  0  0  0  0  0  0  0  0  0  0  0
   -8.8213    1.7799    2.1328 H   0  0  0  0  0  0  0  0  0  0  0  0
   -9.0345   -1.0674    1.9448 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.4225    2.2474    2.3419 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.6015    4.0523    1.2474 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.9882    2.0775   -0.3191 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.4907    2.8935    1.1886 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.4322    0.4693    3.1901 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6969    0.4980    3.4366 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6302    2.0482    3.1213 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1779    1.8591    1.7910 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6997    2.0662    2.6053 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7680    0.5676    2.8497 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9706    2.6876   -0.1021 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2778    1.1708   -1.1022 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5632    2.2120   -0.1024 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2960    2.2224   -1.6980 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2620   -0.0359   -2.0244 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.3164   -0.5950   -3.3446 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4950   -1.5498   -2.2553 H   0  0  0  0  0  0  0  0  0  0  0  0
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    1.2055    2.4553   -1.0944 H   0  0  0  0  0  0  0  0  0  0  0  0
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M  END


  Mrv1533004161521352D          

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M  END
> <DATABASE_ID>
NP0137334

> <DATABASE_NAME>
NP-MRD

> <SMILES>
COC1C=C2C3CC(C)(C)CCC3(CO)C(O)CC2(C)C2(C)CCC3C(C)(CO)C(CCC3(C)C12)OC1OC(C)C(O)C(OC2OC(CO)C(O)C(O)C2O)C1O

> <INCHI_IDENTIFIER>
InChI=1S/C43H72O14/c1-21-29(48)34(57-36-32(51)31(50)30(49)25(18-44)55-36)33(52)37(54-21)56-28-10-11-39(4)26(40(28,5)19-45)9-12-41(6)35(39)24(53-8)15-22-23-16-38(2,3)13-14-43(23,20-46)27(47)17-42(22,41)7/h15,21,23-37,44-52H,9-14,16-20H2,1-8H3

> <INCHI_KEY>
GLQYFMRUYWFXGT-UHFFFAOYSA-N

> <FORMULA>
C43H72O14

> <MOLECULAR_WEIGHT>
813.035

> <EXACT_MASS>
812.492206998

> <JCHEM_ACCEPTOR_COUNT>
14

> <JCHEM_ATOM_COUNT>
129

> <JCHEM_AVERAGE_POLARIZABILITY>
90.35999880521929

> <JCHEM_BIOAVAILABILITY>
0

> <JCHEM_DONOR_COUNT>
9

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
2-[(3,5-dihydroxy-2-{[8-hydroxy-4,8a-bis(hydroxymethyl)-14-methoxy-4,6a,6b,11,11,14b-hexamethyl-1,2,3,4,4a,5,6,6a,6b,7,8,8a,9,10,11,12,12a,14,14a,14b-icosahydropicen-3-yl]oxy}-6-methyloxan-4-yl)oxy]-6-(hydroxymethyl)oxane-3,4,5-triol

> <ALOGPS_LOGP>
1.73

> <JCHEM_LOGP>
0.6062952960000003

> <ALOGPS_LOGS>
-3.73

> <JCHEM_MDDR_LIKE_RULE>
1

> <JCHEM_NUMBER_OF_RINGS>
7

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
12.46860428956045

> <JCHEM_PKA_STRONGEST_ACIDIC>
11.945787246278012

> <JCHEM_PKA_STRONGEST_BASIC>
-2.793310641259348

> <JCHEM_POLAR_SURFACE_AREA>
228.21999999999997

> <JCHEM_REFRACTIVITY>
206.44480000000004

> <JCHEM_ROTATABLE_BOND_COUNT>
8

> <JCHEM_RULE_OF_FIVE>
0

> <ALOGPS_SOLUBILITY>
1.52e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
2-[(3,5-dihydroxy-2-{[8-hydroxy-4,8a-bis(hydroxymethyl)-14-methoxy-4,6a,6b,11,11,14b-hexamethyl-1,2,3,4a,5,6,7,8,9,10,12,12a,14,14a-tetradecahydropicen-3-yl]oxy}-6-methyloxan-4-yl)oxy]-6-(hydroxymethyl)oxane-3,4,5-triol

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 16-APR-15   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   16-APR-15         0                                  
HETATM    1  C   UNK     0       5.184   4.771   0.000  0.00  0.00           C+0
HETATM    2  O   UNK     0       4.414   3.437   0.000  0.00  0.00           O+0
HETATM    3  C   UNK     0       5.184   2.104   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       6.724   2.104   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       7.494   0.770   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       9.034   0.770   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       9.804   2.104   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      11.344   2.104   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0      12.791   2.630   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0      11.076   3.620   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0      12.114   0.770   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0      11.344  -0.564   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       9.804  -0.564   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0      10.574  -1.897   0.000  0.00  0.00           C+0
HETATM   15  O   UNK     0      12.114  -1.897   0.000  0.00  0.00           O+0
HETATM   16  C   UNK     0       9.034  -1.897   0.000  0.00  0.00           C+0
HETATM   17  O   UNK     0       9.804  -3.231   0.000  0.00  0.00           O+0
HETATM   18  C   UNK     0       7.494  -1.897   0.000  0.00  0.00           C+0
HETATM   19  C   UNK     0       6.724  -0.564   0.000  0.00  0.00           C+0
HETATM   20  C   UNK     0       5.954  -1.897   0.000  0.00  0.00           C+0
HETATM   21  C   UNK     0       5.184  -0.564   0.000  0.00  0.00           C+0
HETATM   22  C   UNK     0       5.023  -2.095   0.000  0.00  0.00           C+0
HETATM   23  C   UNK     0       4.414  -1.897   0.000  0.00  0.00           C+0
HETATM   24  C   UNK     0       2.874  -1.897   0.000  0.00  0.00           C+0
HETATM   25  C   UNK     0       2.104  -0.564   0.000  0.00  0.00           C+0
HETATM   26  C   UNK     0       0.564  -0.564   0.000  0.00  0.00           C+0
HETATM   27  C   UNK     0       0.831  -2.080   0.000  0.00  0.00           C+0
HETATM   28  C   UNK     0      -0.883  -1.090   0.000  0.00  0.00           C+0
HETATM   29  O   UNK     0      -1.151  -2.607   0.000  0.00  0.00           O+0
HETATM   30  C   UNK     0      -0.206   0.770   0.000  0.00  0.00           C+0
HETATM   31  C   UNK     0       0.564   2.104   0.000  0.00  0.00           C+0
HETATM   32  C   UNK     0       2.104   2.104   0.000  0.00  0.00           C+0
HETATM   33  C   UNK     0       2.874   0.770   0.000  0.00  0.00           C+0
HETATM   34  C   UNK     0       3.644   2.104   0.000  0.00  0.00           C+0
HETATM   35  C   UNK     0       4.414   0.770   0.000  0.00  0.00           C+0
HETATM   36  O   UNK     0      -1.746   0.770   0.000  0.00  0.00           O+0
HETATM   37  C   UNK     0      -2.516   2.104   0.000  0.00  0.00           C+0
HETATM   38  O   UNK     0      -4.056   2.104   0.000  0.00  0.00           O+0
HETATM   39  C   UNK     0      -4.826   3.437   0.000  0.00  0.00           C+0
HETATM   40  C   UNK     0      -6.366   3.437   0.000  0.00  0.00           C+0
HETATM   41  C   UNK     0      -4.056   4.771   0.000  0.00  0.00           C+0
HETATM   42  O   UNK     0      -4.826   6.105   0.000  0.00  0.00           O+0
HETATM   43  C   UNK     0      -2.516   4.771   0.000  0.00  0.00           C+0
HETATM   44  O   UNK     0      -1.746   6.105   0.000  0.00  0.00           O+0
HETATM   45  C   UNK     0      -2.516   7.438   0.000  0.00  0.00           C+0
HETATM   46  O   UNK     0      -4.056   7.438   0.000  0.00  0.00           O+0
HETATM   47  C   UNK     0      -4.826   8.772   0.000  0.00  0.00           C+0
HETATM   48  C   UNK     0      -6.366   8.772   0.000  0.00  0.00           C+0
HETATM   49  O   UNK     0      -7.136  10.106   0.000  0.00  0.00           O+0
HETATM   50  C   UNK     0      -4.056  10.106   0.000  0.00  0.00           C+0
HETATM   51  O   UNK     0      -4.826  11.439   0.000  0.00  0.00           O+0
HETATM   52  C   UNK     0      -2.516  10.106   0.000  0.00  0.00           C+0
HETATM   53  O   UNK     0      -1.746  11.439   0.000  0.00  0.00           O+0
HETATM   54  C   UNK     0      -1.746   8.772   0.000  0.00  0.00           C+0
HETATM   55  O   UNK     0      -0.206   8.772   0.000  0.00  0.00           O+0
HETATM   56  C   UNK     0      -1.746   3.437   0.000  0.00  0.00           C+0
HETATM   57  O   UNK     0      -0.206   3.437   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    1    3                                                       
CONECT    3    2    4   35                                                  
CONECT    4    3    5                                                       
CONECT    5    4    6   19                                                  
CONECT    6    5    7   13                                                  
CONECT    7    6    8                                                       
CONECT    8    7    9   10   11                                             
CONECT    9    8                                                            
CONECT   10    8                                                            
CONECT   11    8   12                                                       
CONECT   12   11   13                                                       
CONECT   13   12    6   14   16                                             
CONECT   14   13   15                                                       
CONECT   15   14                                                            
CONECT   16   13   17   18                                                  
CONECT   17   16                                                            
CONECT   18   16   19                                                       
CONECT   19   18    5   20   21                                             
CONECT   20   19                                                            
CONECT   21   19   22   23   35                                             
CONECT   22   21                                                            
CONECT   23   21   24                                                       
CONECT   24   23   25                                                       
CONECT   25   24   26   33                                                  
CONECT   26   25   27   28   30                                             
CONECT   27   26                                                            
CONECT   28   26   29                                                       
CONECT   29   28                                                            
CONECT   30   26   31   36                                                  
CONECT   31   30   32                                                       
CONECT   32   31   33                                                       
CONECT   33   32   25   34   35                                             
CONECT   34   33                                                            
CONECT   35   33    3   21                                                  
CONECT   36   30   37                                                       
CONECT   37   36   38   56                                                  
CONECT   38   37   39                                                       
CONECT   39   38   40   41                                                  
CONECT   40   39                                                            
CONECT   41   39   42   43                                                  
CONECT   42   41                                                            
CONECT   43   41   44   56                                                  
CONECT   44   43   45                                                       
CONECT   45   44   46   54                                                  
CONECT   46   45   47                                                       
CONECT   47   46   48   50                                                  
CONECT   48   47   49                                                       
CONECT   49   48                                                            
CONECT   50   47   51   52                                                  
CONECT   51   50                                                            
CONECT   52   50   53   54                                                  
CONECT   53   52                                                            
CONECT   54   52   45   55                                                  
CONECT   55   54                                                            
CONECT   56   43   37   57                                                  
CONECT   57   56                                                            
MASTER        0    0    0    0    0    0    0    0   57    0  126    0
END

View in JSmol

Synonyms

Not Available

Chemical Formula

C₄₃H₇₂O₁₄

Average Mass

813.0350 Da

Monoisotopic Mass

812.49221 Da

IUPAC Name

2-[(3,5-dihydroxy-2-{[8-hydroxy-4,8a-bis(hydroxymethyl)-14-methoxy-4,6a,6b,11,11,14b-hexamethyl-1,2,3,4,4a,5,6,6a,6b,7,8,8a,9,10,11,12,12a,14,14a,14b-icosahydropicen-3-yl]oxy}-6-methyloxan-4-yl)oxy]-6-(hydroxymethyl)oxane-3,4,5-triol

Traditional Name

2-[(3,5-dihydroxy-2-{[8-hydroxy-4,8a-bis(hydroxymethyl)-14-methoxy-4,6a,6b,11,11,14b-hexamethyl-1,2,3,4a,5,6,7,8,9,10,12,12a,14,14a-tetradecahydropicen-3-yl]oxy}-6-methyloxan-4-yl)oxy]-6-(hydroxymethyl)oxane-3,4,5-triol

CAS Registry Number

Not Available

SMILES

COC1C=C2C3CC(C)(C)CCC3(CO)C(O)CC2(C)C2(C)CCC3C(C)(CO)C(CCC3(C)C12)OC1OC(C)C(O)C(OC2OC(CO)C(O)C(O)C2O)C1O

InChI Identifier

InChI=1S/C43H72O14/c1-21-29(48)34(57-36-32(51)31(50)30(49)25(18-44)55-36)33(52)37(54-21)56-28-10-11-39(4)26(40(28,5)19-45)9-12-41(6)35(39)24(53-8)15-22-23-16-38(2,3)13-14-43(23,20-46)27(47)17-42(22,41)7/h15,21,23-37,44-52H,9-14,16-20H2,1-8H3

InChI Key

GLQYFMRUYWFXGT-UHFFFAOYSA-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
Bupleurum falcatum	LOTUS Database	35616633
Bupleurum marginatum	LOTUS Database	35616633
Clinopodium micranthum	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as triterpene saponins. These are glycosylated derivatives of triterpene sapogenins. The sapogenin moiety backbone is usually based on the oleanane, ursane, taraxastane, bauerane, lanostane, lupeol, lupane, dammarane, cycloartane, friedelane, hopane, 9b,19-cyclo-lanostane, cycloartane, or cycloartanol skeleton.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Prenol lipids

Sub Class

Terpene glycosides

Direct Parent

Triterpene saponins

Alternative Parents

Substituents

Triterpene saponin
Triterpenoid
Steroid
Disaccharide
Glycosyl compound
O-glycosyl compound
Oxane
Cyclic alcohol
Secondary alcohol
Polyol
Ether
Acetal
Dialkyl ether
Oxacycle
Organoheterocyclic compound
Organic oxygen compound
Primary alcohol
Organooxygen compound
Alcohol
Hydrocarbon derivative
Aliphatic heteropolycyclic compound

Molecular Framework

Aliphatic heteropolycyclic 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	1.73	ALOGPS
logP	0.61	ChemAxon
logS	-3.7	ALOGPS
pKa (Strongest Acidic)	11.95	ChemAxon
pKa (Strongest Basic)	-2.8	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	14	ChemAxon
Hydrogen Donor Count	9	ChemAxon
Polar Surface Area	228.22 Å²	ChemAxon
Rotatable Bond Count	8	ChemAxon
Refractivity	206.44 m³·mol⁻¹	ChemAxon
Polarizability	90.36 Å³	ChemAxon
Number of Rings	7	ChemAxon
Bioavailability	No	ChemAxon
Rule of Five	No	ChemAxon
Ghose Filter	No	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	Yes	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

73818264

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Not Available

Showing NP-Card for Saikosaponin B3 (NP0137334)

MOL for NP0137334 (Saikosaponin B3)

3D MOL for NP0137334 (Saikosaponin B3)

3D SDF for NP0137334 (Saikosaponin B3)

3D-SDF for NP0137334 (Saikosaponin B3)

PDB for NP0137334 (Saikosaponin B3)

3D PDB for NP0137334 (Saikosaponin B3)

SMILES for NP0137334 (Saikosaponin B3)

INCHI for NP0137334 (Saikosaponin B3)

Structure for NP0137334 (Saikosaponin B3)

3D Structure for NP0137334 (Saikosaponin B3)