NP-MRD: Showing NP-Card for 3-phenylethyl-2′-deoxyuridine (NP0015297)

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Record Information

Version

2.0

Created at

2021-01-06 00:28:19 UTC

Updated at

2021-07-15 17:19:34 UTC

NP-MRD ID

NP0015297

Secondary Accession Numbers

None

Natural Product Identification

Common Name

3-phenylethyl-2′-deoxyuridine

Provided By

NPAtlas

Description

1-[(2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-3-(2-phenylethyl)-1,2,3,4-tetrahydropyrimidine-2,4-dione belongs to the class of organic compounds known as pyrimidine 2'-deoxyribonucleosides. Pyrimidine 2'-deoxyribonucleosides are compounds consisting of a pyrimidine linked to a ribose which lacks a hydroxyl group at position 2. 3-phenylethyl-2′-deoxyuridine is found in Moorea producens. Based on a literature review very few articles have been published on 1-[(2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-3-(2-phenylethyl)-1,2,3,4-tetrahydropyrimidine-2,4-dione.

Structure

MOL 3D MOL SDF 3D SDF PDB SMILES InChI


  Mrv1652306242117183D          

 44 46  0  0  0  0            999 V2000
    2.7894    1.6966   -1.4352 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.6167    1.3175   -1.1805 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7719    2.0341   -0.3444 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5102    1.6258   -0.0619 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9669    0.4920   -0.6131 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2941   -0.0184   -0.3786 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.3618   -0.8181    0.8842 C   0  0  1  0  0  0  0  0  0  0  0  0
   -3.6940   -0.3656    1.4772 C   0  0  2  0  0  0  0  0  0  0  0  0
   -4.4444   -1.4579    1.9057 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3222    0.3107    0.2772 C   0  0  1  0  0  0  0  0  0  0  0  0
   -5.4505    1.2310    0.6819 C   0  0  2  0  0  0  0  0  0  0  0  0
   -4.9891    2.1131    1.6567 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2400    1.0171   -0.2413 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1590   -0.2001   -1.4173 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5658   -1.2701   -1.9479 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.1080    0.1802   -1.7117 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.9602   -0.5970   -2.5911 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.7458   -1.6025   -1.8380 C   0  0  1  0  0  0  0  0  0  0  0  0
    3.6476   -1.1117   -0.8124 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.9651   -0.7668   -0.9888 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.7332   -0.3089    0.0587 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.2190   -0.1747    1.3315 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9066   -0.5164    1.5157 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1427   -0.9729    0.4688 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1423    2.9618    0.1081 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1888    2.1619    0.5837 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6287   -0.6108   -1.2658 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4888   -1.8910    0.6239 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5236   -0.6385    1.5797 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4750    0.3468    2.2955 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.3921   -1.2668    1.6250 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6195   -0.4456   -0.4460 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.3055    0.6751    1.1114 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.8143    1.7601   -0.2204 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0273    3.0630    1.3194 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.5350    0.1101   -3.1945 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.2815   -1.1385   -3.2832 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0376   -2.3208   -1.3741 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.3526   -2.2258   -2.5536 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.3733   -0.8682   -1.9765 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.7821   -0.0332   -0.0770 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.7988    0.1802    2.1636 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4528   -0.4283    2.5033 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0994   -1.2283    0.6880 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0  0  0  0
  2  3  1  0  0  0  0
  3  4  2  0  0  0  0
  4  5  1  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
 10 11  1  0  0  0  0
 11 12  1  0  0  0  0
 10 13  1  0  0  0  0
  5 14  1  0  0  0  0
 14 15  2  0  0  0  0
 14 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  2  0  0  0  0
 20 21  1  0  0  0  0
 21 22  2  0  0  0  0
 22 23  1  0  0  0  0
 23 24  2  0  0  0  0
 16  2  1  0  0  0  0
 24 19  1  0  0  0  0
 13  6  1  0  0  0  0
  3 25  1  0  0  0  0
  4 26  1  0  0  0  0
  6 27  1  6  0  0  0
  7 28  1  0  0  0  0
  7 29  1  0  0  0  0
  8 30  1  1  0  0  0
  9 31  1  0  0  0  0
 10 32  1  6  0  0  0
 11 33  1  0  0  0  0
 11 34  1  0  0  0  0
 12 35  1  0  0  0  0
 17 36  1  0  0  0  0
 17 37  1  0  0  0  0
 18 38  1  0  0  0  0
 18 39  1  0  0  0  0
 20 40  1  0  0  0  0
 21 41  1  0  0  0  0
 22 42  1  0  0  0  0
 23 43  1  0  0  0  0
 24 44  1  0  0  0  0
M  END

     RDKit          3D

 44 46  0  0  0  0  0  0  0  0999 V2000
    2.7894    1.6966   -1.4352 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.6167    1.3175   -1.1805 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7719    2.0341   -0.3444 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5102    1.6258   -0.0619 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9669    0.4920   -0.6131 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2941   -0.0184   -0.3786 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.3618   -0.8181    0.8842 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6940   -0.3656    1.4772 C   0  0  2  0  0  0  0  0  0  0  0  0
   -4.4444   -1.4579    1.9057 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3222    0.3107    0.2772 C   0  0  1  0  0  0  0  0  0  0  0  0
   -5.4505    1.2310    0.6819 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.9891    2.1131    1.6567 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2400    1.0171   -0.2413 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1590   -0.2001   -1.4173 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5658   -1.2701   -1.9479 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.1080    0.1802   -1.7117 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.9602   -0.5970   -2.5911 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.7458   -1.6025   -1.8380 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.6476   -1.1117   -0.8124 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.9651   -0.7668   -0.9888 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.7332   -0.3089    0.0587 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.2190   -0.1747    1.3315 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9066   -0.5164    1.5157 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1427   -0.9729    0.4688 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1423    2.9618    0.1081 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1888    2.1619    0.5837 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6287   -0.6108   -1.2658 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4888   -1.8910    0.6239 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5236   -0.6385    1.5797 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4750    0.3468    2.2955 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.3921   -1.2668    1.6250 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6195   -0.4456   -0.4460 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.3055    0.6751    1.1114 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.8143    1.7601   -0.2204 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0273    3.0630    1.3194 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.5350    0.1101   -3.1945 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.2815   -1.1385   -3.2832 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0376   -2.3208   -1.3741 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.3526   -2.2258   -2.5536 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.3733   -0.8682   -1.9765 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.7821   -0.0332   -0.0770 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.7988    0.1802    2.1636 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4528   -0.4283    2.5033 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0994   -1.2283    0.6880 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0
  2  3  1  0
  3  4  2  0
  4  5  1  0
  5  6  1  0
  6  7  1  0
  7  8  1  0
  8  9  1  0
  8 10  1  0
 10 11  1  0
 11 12  1  0
 10 13  1  0
  5 14  1  0
 14 15  2  0
 14 16  1  0
 16 17  1  0
 17 18  1  0
 18 19  1  0
 19 20  2  0
 20 21  1  0
 21 22  2  0
 22 23  1  0
 23 24  2  0
 16  2  1  0
 24 19  1  0
 13  6  1  0
  3 25  1  0
  4 26  1  0
  6 27  1  6
  7 28  1  0
  7 29  1  0
  8 30  1  1
  9 31  1  0
 10 32  1  6
 11 33  1  0
 11 34  1  0
 12 35  1  0
 17 36  1  0
 17 37  1  0
 18 38  1  0
 18 39  1  0
 20 40  1  0
 21 41  1  0
 22 42  1  0
 23 43  1  0
 24 44  1  0
M  END


  Mrv1652306242117183D          

 44 46  0  0  0  0            999 V2000
    2.7894    1.6966   -1.4352 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.6167    1.3175   -1.1805 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7719    2.0341   -0.3444 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5102    1.6258   -0.0619 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9669    0.4920   -0.6131 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2941   -0.0184   -0.3786 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.3618   -0.8181    0.8842 C   0  0  1  0  0  0  0  0  0  0  0  0
   -3.6940   -0.3656    1.4772 C   0  0  2  0  0  0  0  0  0  0  0  0
   -4.4444   -1.4579    1.9057 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3222    0.3107    0.2772 C   0  0  1  0  0  0  0  0  0  0  0  0
   -5.4505    1.2310    0.6819 C   0  0  2  0  0  0  0  0  0  0  0  0
   -4.9891    2.1131    1.6567 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2400    1.0171   -0.2413 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1590   -0.2001   -1.4173 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5658   -1.2701   -1.9479 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.1080    0.1802   -1.7117 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.9602   -0.5970   -2.5911 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.7458   -1.6025   -1.8380 C   0  0  1  0  0  0  0  0  0  0  0  0
    3.6476   -1.1117   -0.8124 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.9651   -0.7668   -0.9888 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.7332   -0.3089    0.0587 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.2190   -0.1747    1.3315 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9066   -0.5164    1.5157 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1427   -0.9729    0.4688 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1423    2.9618    0.1081 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1888    2.1619    0.5837 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6287   -0.6108   -1.2658 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4888   -1.8910    0.6239 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5236   -0.6385    1.5797 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4750    0.3468    2.2955 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.3921   -1.2668    1.6250 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6195   -0.4456   -0.4460 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.3055    0.6751    1.1114 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.8143    1.7601   -0.2204 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0273    3.0630    1.3194 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.5350    0.1101   -3.1945 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.2815   -1.1385   -3.2832 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0376   -2.3208   -1.3741 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.3526   -2.2258   -2.5536 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.3733   -0.8682   -1.9765 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.7821   -0.0332   -0.0770 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.7988    0.1802    2.1636 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4528   -0.4283    2.5033 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0994   -1.2283    0.6880 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0  0  0  0
  2  3  1  0  0  0  0
  3  4  2  0  0  0  0
  4  5  1  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
 10 11  1  0  0  0  0
 11 12  1  0  0  0  0
 10 13  1  0  0  0  0
  5 14  1  0  0  0  0
 14 15  2  0  0  0  0
 14 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
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 20 21  1  0  0  0  0
 21 22  2  0  0  0  0
 22 23  1  0  0  0  0
 23 24  2  0  0  0  0
 16  2  1  0  0  0  0
 24 19  1  0  0  0  0
 13  6  1  0  0  0  0
  3 25  1  0  0  0  0
  4 26  1  0  0  0  0
  6 27  1  6  0  0  0
  7 28  1  0  0  0  0
  7 29  1  0  0  0  0
  8 30  1  1  0  0  0
  9 31  1  0  0  0  0
 10 32  1  6  0  0  0
 11 33  1  0  0  0  0
 11 34  1  0  0  0  0
 12 35  1  0  0  0  0
 17 36  1  0  0  0  0
 17 37  1  0  0  0  0
 18 38  1  0  0  0  0
 18 39  1  0  0  0  0
 20 40  1  0  0  0  0
 21 41  1  0  0  0  0
 22 42  1  0  0  0  0
 23 43  1  0  0  0  0
 24 44  1  0  0  0  0
M  END
> <DATABASE_ID>
NP0015297

> <DATABASE_NAME>
NP-MRD

> <SMILES>
[H]OC([H])([H])[C@@]1([H])O[C@@]([H])(N2C([H])=C([H])C(=O)N(C2=O)C([H])([H])C([H])([H])C2=C([H])C([H])=C([H])C([H])=C2[H])C([H])([H])[C@]1([H])O[H]

> <INCHI_IDENTIFIER>
InChI=1S/C17H20N2O5/c20-11-14-13(21)10-16(24-14)19-9-7-15(22)18(17(19)23)8-6-12-4-2-1-3-5-12/h1-5,7,9,13-14,16,20-21H,6,8,10-11H2/t13-,14+,16+/m0/s1

> <INCHI_KEY>
LYLFFZWTYHJLCZ-SQWLQELKSA-N

> <FORMULA>
C17H20N2O5

> <MOLECULAR_WEIGHT>
332.356

> <EXACT_MASS>
332.137221752

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_ATOM_COUNT>
44

> <JCHEM_AVERAGE_POLARIZABILITY>
33.74417452480242

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
1-[(2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-3-(2-phenylethyl)-1,2,3,4-tetrahydropyrimidine-2,4-dione

> <ALOGPS_LOGP>
0.23

> <JCHEM_LOGP>
0.7222063093333334

> <ALOGPS_LOGS>
-1.76

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
14.787555430921127

> <JCHEM_PKA_STRONGEST_ACIDIC>
13.894924611018102

> <JCHEM_PKA_STRONGEST_BASIC>
-2.9780835891464124

> <JCHEM_POLAR_SURFACE_AREA>
90.31000000000002

> <JCHEM_REFRACTIVITY>
85.31920000000002

> <JCHEM_ROTATABLE_BOND_COUNT>
5

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
5.82e+00 g/l

> <JCHEM_TRADITIONAL_IUPAC>
1-[(2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-3-(2-phenylethyl)pyrimidine-2,4-dione

> <JCHEM_VEBER_RULE>
0

$$$$

     RDKit          3D

 44 46  0  0  0  0  0  0  0  0999 V2000
    2.7894    1.6966   -1.4352 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.6167    1.3175   -1.1805 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7719    2.0341   -0.3444 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5102    1.6258   -0.0619 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9669    0.4920   -0.6131 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2941   -0.0184   -0.3786 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.3618   -0.8181    0.8842 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6940   -0.3656    1.4772 C   0  0  2  0  0  0  0  0  0  0  0  0
   -4.4444   -1.4579    1.9057 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3222    0.3107    0.2772 C   0  0  1  0  0  0  0  0  0  0  0  0
   -5.4505    1.2310    0.6819 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.9891    2.1131    1.6567 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2400    1.0171   -0.2413 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1590   -0.2001   -1.4173 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5658   -1.2701   -1.9479 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.1080    0.1802   -1.7117 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.9602   -0.5970   -2.5911 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.7458   -1.6025   -1.8380 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.6476   -1.1117   -0.8124 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.9651   -0.7668   -0.9888 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.7332   -0.3089    0.0587 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.2190   -0.1747    1.3315 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9066   -0.5164    1.5157 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1427   -0.9729    0.4688 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1423    2.9618    0.1081 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1888    2.1619    0.5837 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6287   -0.6108   -1.2658 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4888   -1.8910    0.6239 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5236   -0.6385    1.5797 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4750    0.3468    2.2955 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.3921   -1.2668    1.6250 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6195   -0.4456   -0.4460 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.3055    0.6751    1.1114 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.8143    1.7601   -0.2204 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0273    3.0630    1.3194 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.5350    0.1101   -3.1945 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.2815   -1.1385   -3.2832 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0376   -2.3208   -1.3741 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.3526   -2.2258   -2.5536 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.3733   -0.8682   -1.9765 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.7821   -0.0332   -0.0770 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.7988    0.1802    2.1636 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4528   -0.4283    2.5033 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0994   -1.2283    0.6880 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0
  2  3  1  0
  3  4  2  0
  4  5  1  0
  5  6  1  0
  6  7  1  0
  7  8  1  0
  8  9  1  0
  8 10  1  0
 10 11  1  0
 11 12  1  0
 10 13  1  0
  5 14  1  0
 14 15  2  0
 14 16  1  0
 16 17  1  0
 17 18  1  0
 18 19  1  0
 19 20  2  0
 20 21  1  0
 21 22  2  0
 22 23  1  0
 23 24  2  0
 16  2  1  0
 24 19  1  0
 13  6  1  0
  3 25  1  0
  4 26  1  0
  6 27  1  6
  7 28  1  0
  7 29  1  0
  8 30  1  1
  9 31  1  0
 10 32  1  6
 11 33  1  0
 11 34  1  0
 12 35  1  0
 17 36  1  0
 17 37  1  0
 18 38  1  0
 18 39  1  0
 20 40  1  0
 21 41  1  0
 22 42  1  0
 23 43  1  0
 24 44  1  0
M  END

HEADER    PROTEIN                                 24-JUN-21   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   24-JUN-21         0                                  
HETATM    1  O   UNK     0       2.789   1.697  -1.435  0.00  0.00           O+0
HETATM    2  C   UNK     0       1.617   1.317  -1.181  0.00  0.00           C+0
HETATM    3  C   UNK     0       0.772   2.034  -0.344  0.00  0.00           C+0
HETATM    4  C   UNK     0      -0.510   1.626  -0.062  0.00  0.00           C+0
HETATM    5  N   UNK     0      -0.967   0.492  -0.613  0.00  0.00           N+0
HETATM    6  C   UNK     0      -2.294  -0.018  -0.379  0.00  0.00           C+0
HETATM    7  C   UNK     0      -2.362  -0.818   0.884  0.00  0.00           C+0
HETATM    8  C   UNK     0      -3.694  -0.366   1.477  0.00  0.00           C+0
HETATM    9  O   UNK     0      -4.444  -1.458   1.906  0.00  0.00           O+0
HETATM   10  C   UNK     0      -4.322   0.311   0.277  0.00  0.00           C+0
HETATM   11  C   UNK     0      -5.450   1.231   0.682  0.00  0.00           C+0
HETATM   12  O   UNK     0      -4.989   2.113   1.657  0.00  0.00           O+0
HETATM   13  O   UNK     0      -3.240   1.017  -0.241  0.00  0.00           O+0
HETATM   14  C   UNK     0      -0.159  -0.200  -1.417  0.00  0.00           C+0
HETATM   15  O   UNK     0      -0.566  -1.270  -1.948  0.00  0.00           O+0
HETATM   16  N   UNK     0       1.108   0.180  -1.712  0.00  0.00           N+0
HETATM   17  C   UNK     0       1.960  -0.597  -2.591  0.00  0.00           C+0
HETATM   18  C   UNK     0       2.746  -1.603  -1.838  0.00  0.00           C+0
HETATM   19  C   UNK     0       3.648  -1.112  -0.812  0.00  0.00           C+0
HETATM   20  C   UNK     0       4.965  -0.767  -0.989  0.00  0.00           C+0
HETATM   21  C   UNK     0       5.733  -0.309   0.059  0.00  0.00           C+0
HETATM   22  C   UNK     0       5.219  -0.175   1.331  0.00  0.00           C+0
HETATM   23  C   UNK     0       3.907  -0.516   1.516  0.00  0.00           C+0
HETATM   24  C   UNK     0       3.143  -0.973   0.469  0.00  0.00           C+0
HETATM   25  H   UNK     0       1.142   2.962   0.108  0.00  0.00           H+0
HETATM   26  H   UNK     0      -1.189   2.162   0.584  0.00  0.00           H+0
HETATM   27  H   UNK     0      -2.629  -0.611  -1.266  0.00  0.00           H+0
HETATM   28  H   UNK     0      -2.489  -1.891   0.624  0.00  0.00           H+0
HETATM   29  H   UNK     0      -1.524  -0.639   1.580  0.00  0.00           H+0
HETATM   30  H   UNK     0      -3.475   0.347   2.296  0.00  0.00           H+0
HETATM   31  H   UNK     0      -5.392  -1.267   1.625  0.00  0.00           H+0
HETATM   32  H   UNK     0      -4.620  -0.446  -0.446  0.00  0.00           H+0
HETATM   33  H   UNK     0      -6.306   0.675   1.111  0.00  0.00           H+0
HETATM   34  H   UNK     0      -5.814   1.760  -0.220  0.00  0.00           H+0
HETATM   35  H   UNK     0      -5.027   3.063   1.319  0.00  0.00           H+0
HETATM   36  H   UNK     0       2.535   0.110  -3.195  0.00  0.00           H+0
HETATM   37  H   UNK     0       1.282  -1.139  -3.283  0.00  0.00           H+0
HETATM   38  H   UNK     0       2.038  -2.321  -1.374  0.00  0.00           H+0
HETATM   39  H   UNK     0       3.353  -2.226  -2.554  0.00  0.00           H+0
HETATM   40  H   UNK     0       5.373  -0.868  -1.976  0.00  0.00           H+0
HETATM   41  H   UNK     0       6.782  -0.033  -0.077  0.00  0.00           H+0
HETATM   42  H   UNK     0       5.799   0.180   2.164  0.00  0.00           H+0
HETATM   43  H   UNK     0       3.453  -0.428   2.503  0.00  0.00           H+0
HETATM   44  H   UNK     0       2.099  -1.228   0.688  0.00  0.00           H+0
CONECT    1    2                                                            
CONECT    2    1    3   16                                                  
CONECT    3    2    4   25                                                  
CONECT    4    3    5   26                                                  
CONECT    5    4    6   14                                                  
CONECT    6    5    7   13   27                                             
CONECT    7    6    8   28   29                                             
CONECT    8    7    9   10   30                                             
CONECT    9    8   31                                                       
CONECT   10    8   11   13   32                                             
CONECT   11   10   12   33   34                                             
CONECT   12   11   35                                                       
CONECT   13   10    6                                                       
CONECT   14    5   15   16                                                  
CONECT   15   14                                                            
CONECT   16   14   17    2                                                  
CONECT   17   16   18   36   37                                             
CONECT   18   17   19   38   39                                             
CONECT   19   18   20   24                                                  
CONECT   20   19   21   40                                                  
CONECT   21   20   22   41                                                  
CONECT   22   21   23   42                                                  
CONECT   23   22   24   43                                                  
CONECT   24   23   19   44                                                  
CONECT   25    3                                                            
CONECT   26    4                                                            
CONECT   27    6                                                            
CONECT   28    7                                                            
CONECT   29    7                                                            
CONECT   30    8                                                            
CONECT   31    9                                                            
CONECT   32   10                                                            
CONECT   33   11                                                            
CONECT   34   11                                                            
CONECT   35   12                                                            
CONECT   36   17                                                            
CONECT   37   17                                                            
CONECT   38   18                                                            
CONECT   39   18                                                            
CONECT   40   20                                                            
CONECT   41   21                                                            
CONECT   42   22                                                            
CONECT   43   23                                                            
CONECT   44   24                                                            
MASTER        0    0    0    0    0    0    0    0   44    0   92    0
END

RDKit          3D

44 46  0  0  0  0  0  0  0  0999 V2000
    2.7894    1.6966   -1.4352 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.6167    1.3175   -1.1805 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.7719    2.0341   -0.3444 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5102    1.6258   -0.0619 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9669    0.4920   -0.6131 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2941   -0.0184   -0.3786 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.3618   -0.8181    0.8842 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6940   -0.3656    1.4772 C   0  0  2  0  0  0  0  0  0  0  0  0
   -4.4444   -1.4579    1.9057 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3222    0.3107    0.2772 C   0  0  1  0  0  0  0  0  0  0  0  0
   -5.4505    1.2310    0.6819 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.9891    2.1131    1.6567 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2400    1.0171   -0.2413 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1590   -0.2001   -1.4173 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5658   -1.2701   -1.9479 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.1080    0.1802   -1.7117 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.9602   -0.5970   -2.5911 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.7458   -1.6025   -1.8380 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.6476   -1.1117   -0.8124 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.9651   -0.7668   -0.9888 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.7332   -0.3089    0.0587 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.2190   -0.1747    1.3315 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9066   -0.5164    1.5157 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1427   -0.9729    0.4688 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.1423    2.9618    0.1081 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1888    2.1619    0.5837 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6287   -0.6108   -1.2658 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4888   -1.8910    0.6239 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5236   -0.6385    1.5797 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4750    0.3468    2.2955 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.3921   -1.2668    1.6250 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6195   -0.4456   -0.4460 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.3055    0.6751    1.1114 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.8143    1.7601   -0.2204 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0273    3.0630    1.3194 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.5350    0.1101   -3.1945 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.2815   -1.1385   -3.2832 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0376   -2.3208   -1.3741 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.3526   -2.2258   -2.5536 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.3733   -0.8682   -1.9765 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.7821   -0.0332   -0.0770 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.7988    0.1802    2.1636 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4528   -0.4283    2.5033 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.0994   -1.2283    0.6880 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0
  2  3  1  0
  3  4  2  0
  4  5  1  0
  5  6  1  0
  6  7  1  0
  7  8  1  0
  8  9  1  0
  8 10  1  0
 10 11  1  0
 11 12  1  0
 10 13  1  0
  5 14  1  0
 14 15  2  0
 14 16  1  0
 16 17  1  0
 17 18  1  0
 18 19  1  0
 19 20  2  0
 20 21  1  0
 21 22  2  0
 22 23  1  0
 23 24  2  0
 16  2  1  0
 24 19  1  0
 13  6  1  0
  3 25  1  0
  4 26  1  0
  6 27  1  6
  7 28  1  0
  7 29  1  0
  8 30  1  1
  9 31  1  0
 10 32  1  6
 11 33  1  0
 11 34  1  0
 12 35  1  0
 17 36  1  0
 17 37  1  0
 18 38  1  0
 18 39  1  0
 20 40  1  0
 21 41  1  0
 22 42  1  0
 23 43  1  0
 24 44  1  0
M  END

View in JSmol View NMR Assignments

Synonyms

Not Available

Chemical Formula

C₁₇H₂₀N₂O₅

Average Mass

332.3560 Da

Monoisotopic Mass

332.13722 Da

IUPAC Name

1-[(2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-3-(2-phenylethyl)-1,2,3,4-tetrahydropyrimidine-2,4-dione

Traditional Name

1-[(2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-3-(2-phenylethyl)pyrimidine-2,4-dione

CAS Registry Number

Not Available

SMILES

OC[C@H]1O[C@H](C[C@@H]1O)N1C=CC(=O)N(CCC2=CC=CC=C2)C1=O

InChI Identifier

InChI=1S/C17H20N2O5/c20-11-14-13(21)10-16(24-14)19-9-7-15(22)18(17(19)23)8-6-12-4-2-1-3-5-12/h1-5,7,9,13-14,16,20-21H,6,8,10-11H2/t13-,14+,16+/m0/s1

InChI Key

LYLFFZWTYHJLCZ-SQWLQELKSA-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, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 252 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 50 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 75 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 101 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 126 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 151 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 176 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 201 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 226 MHz, D₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, D₂O, 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
Moorea producens	NPAtlas	27005610

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as pyrimidine 2'-deoxyribonucleosides. Pyrimidine 2'-deoxyribonucleosides are compounds consisting of a pyrimidine linked to a ribose which lacks a hydroxyl group at position 2.

Kingdom

Organic compounds

Super Class

Nucleosides, nucleotides, and analogues

Class

Pyrimidine nucleosides

Sub Class

Pyrimidine 2'-deoxyribonucleosides

Direct Parent

Pyrimidine 2'-deoxyribonucleosides

Alternative Parents

Substituents

Pyrimidine 2'-deoxyribonucleoside
Pyrimidone
Benzenoid
Pyrimidine
Hydropyrimidine
Monocyclic benzene moiety
Heteroaromatic compound
Vinylogous amide
Tetrahydrofuran
Urea
Secondary alcohol
Lactam
Oxacycle
Azacycle
Organoheterocyclic compound
Organic nitrogen compound
Organic oxygen compound
Organopnictogen compound
Organic oxide
Hydrocarbon derivative
Primary alcohol
Organooxygen compound
Organonitrogen compound
Alcohol
Aromatic heteromonocyclic compound

Molecular Framework

Aromatic heteromonocyclic 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	0.23	ALOGPS
logP	0.72	ChemAxon
logS	-1.8	ALOGPS
pKa (Strongest Acidic)	13.89	ChemAxon
pKa (Strongest Basic)	-3	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	90.31 Å²	ChemAxon
Rotatable Bond Count	5	ChemAxon
Refractivity	85.32 m³·mol⁻¹	ChemAxon
Polarizability	33.74 Å³	ChemAxon
Number of Rings	3	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

NPAtlas ID

NPA027485

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

58196617

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

132580954

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Showing NP-Card for 3-phenylethyl-2′-deoxyuridine (NP0015297)

MOL for NP0015297 (3-phenylethyl-2′-deoxyuridine)

3D MOL for NP0015297 (3-phenylethyl-2′-deoxyuridine)

3D SDF for NP0015297 (3-phenylethyl-2′-deoxyuridine)

3D-SDF for NP0015297 (3-phenylethyl-2′-deoxyuridine)

PDB for NP0015297 (3-phenylethyl-2′-deoxyuridine)

3D PDB for NP0015297 (3-phenylethyl-2′-deoxyuridine)

SMILES for NP0015297 (3-phenylethyl-2′-deoxyuridine)

INCHI for NP0015297 (3-phenylethyl-2′-deoxyuridine)

Structure for NP0015297 (3-phenylethyl-2′-deoxyuridine)

3D Structure for NP0015297 (3-phenylethyl-2′-deoxyuridine)