MiMeDB: Showing metabocard for Pseudouridine 5'-phosphate (MMDBc0029604)

Record Information

Version

1.0

Status

Detected and Quantified

Creation Date

2021-11-17 23:34:07 UTC

Update Date

2024-04-30 19:38:55 UTC

Metabolite ID

MMDBc0029604

Metabolite Identification

Common Name

Pseudouridine 5'-phosphate

Description

Pseudouridine 5'-phosphate is a member of the chemical class known as Pentoses. These are monosaccharides in which the carbohydrate moiety contains five carbon atoms. Pseudouridine 5'-phosphate is an intermediate in pseudouridine degradation pathway. In this pathway, pseudouridine is metabolised to uracil. [BiocycPWY-6019]

Structure

MOL 3D MOL SDF 3D SDF PDB 3D PDB SMILES InChI

HMDB0001271
     RDKit          3D
Pseudouridine 5'-phosphate
 34 35  0  0  0  0  0  0  0  0999 V2000
   -4.4828    2.7658   -1.6486 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7232    1.9334   -1.0482 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3975    0.7802   -1.6562 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5968   -0.1292   -1.0581 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0947    0.1098    0.1974 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2197   -0.7730    0.9689 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.0032   -0.1245    1.1138 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.9928   -0.8725    0.5504 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.0262   -0.1033   -0.2117 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6506    0.8063    0.6589 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.8066    1.6390   -0.2652 P   0  0  0  0  0  5  0  0  0  0  0  0
    3.3778    1.7292   -1.6941 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.2715    0.8035   -0.1508 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.9805    3.1780    0.3710 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.3264   -1.8664   -0.4060 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.1023   -2.9945   -0.5087 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9651   -2.1029    0.3541 C   0  0  1  0  0  0  0  0  0  0  0  0
   -0.6532   -3.0083    1.3883 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4559    1.3142    0.7911 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0374    1.6138    1.9470 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2480    2.2030    0.1869 N   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7793    0.6041   -2.6070 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3307   -1.0490   -1.5330 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6690   -0.8985    1.9834 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5083   -1.4107    1.3743 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.7510   -0.8279   -0.6246 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5949    0.4513   -1.0740 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.1373   -0.1755   -0.1148 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.8331    3.1338    1.3565 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1574   -1.4024   -1.3826 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4307   -3.2832    0.3775 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7653   -2.5145   -0.2513 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.0051   -2.6404    2.0020 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5305    3.1112    0.6136 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0
  2  3  1  0
  3  4  1  0
  4  5  2  0
  5  6  1  0
  6  7  1  0
  7  8  1  0
  8  9  1  0
  9 10  1  0
 10 11  1  0
 11 12  2  0
 11 13  1  0
 11 14  1  0
  8 15  1  0
 15 16  1  0
 15 17  1  0
 17 18  1  0
  5 19  1  0
 19 20  2  0
 19 21  1  0
 21  2  1  0
 17  6  1  0
  3 22  1  0
  4 23  1  0
  6 24  1  1
  8 25  1  1
  9 26  1  0
  9 27  1  0
 13 28  1  0
 14 29  1  0
 15 30  1  6
 16 31  1  0
 17 32  1  6
 18 33  1  0
 21 34  1  0
M  END


  Mrv1652304282021312D          

 21 22  0  0  0  0            999 V2000
10000.906010001.5423    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
 9999.120010001.5505    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
 9998.6112 9999.6953    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
10000.6591 9998.4594    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
 9997.898210000.1057    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
 9997.1853 9999.6953    0.0000 P   0  0  0  0  0  0  0  0  0  0  0  0
10003.5096 9998.4594    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
 9997.5979 9998.9823    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
 9996.470310000.1078    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
 9996.7747 9998.9823    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
 9999.9946 9999.6113    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
10000.662010000.0963    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
10000.407110000.8809    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
 9999.582110000.8809    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
 9999.327210000.0963    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
10002.084710000.1083    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
10001.3702 9999.6958    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
10001.3702 9998.8707    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
10002.0847 9998.4583    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
10002.7992 9998.8707    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
10002.7992 9999.6958    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
  3  5  1  0  0  0  0
  5  6  1  0  0  0  0
  6  8  2  0  0  0  0
  6  9  1  0  0  0  0
  6 10  1  0  0  0  0
 12 13  1  0  0  0  0
 13 14  1  0  0  0  0
 14 15  1  0  0  0  0
 11 12  1  0  0  0  0
 11 15  1  0  0  0  0
 13  1  1  1  0  0  0
 14  2  1  1  0  0  0
 15  3  1  6  0  0  0
 16 17  2  0  0  0  0
 17 18  1  0  0  0  0
 18 19  1  0  0  0  0
 19 20  1  0  0  0  0
 16 21  1  0  0  0  0
 20 21  1  0  0  0  0
 12 17  1  6  0  0  0
 18  4  2  0  0  0  0
 20  7  2  0  0  0  0
M  END
> <DATABASE_ID>
MMDBc0029604

> <DATABASE_NAME>
MIME

> <SMILES>
O[C@H]1[C@@H](O)[C@@H](O[C@@H]1COP(O)(O)=O)C1=CNC(=O)NC1=O

> <INCHI_IDENTIFIER>
InChI=1S/C9H13N2O9P/c12-5-4(2-19-21(16,17)18)20-7(6(5)13)3-1-10-9(15)11-8(3)14/h1,4-7,12-13H,2H2,(H2,16,17,18)(H2,10,11,14,15)/t4-,5-,6-,7+/m1/s1

> <INCHI_KEY>
MOBMOJGXNHLLIR-GBNDHIKLSA-N

> <FORMULA>
C9H13N2O9P

> <MOLECULAR_WEIGHT>
324.1813

> <EXACT_MASS>
324.035866536

> <JCHEM_ACCEPTOR_COUNT>
8

> <JCHEM_ATOM_COUNT>
34

> <JCHEM_AVERAGE_POLARIZABILITY>
26.315367273298467

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
6

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
{[(2R,3S,4R,5S)-5-(2,4-dioxo-1,2,3,4-tetrahydropyrimidin-5-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}phosphonic acid

> <ALOGPS_LOGP>
-1.86

> <JCHEM_LOGP>
-3.2237138943333337

> <ALOGPS_LOGS>
-1.64

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-2

> <JCHEM_PKA>
6.253241023189858

> <JCHEM_PKA_STRONGEST_ACIDIC>
1.2291145458274322

> <JCHEM_PKA_STRONGEST_BASIC>
-3.648940885134036

> <JCHEM_POLAR_SURFACE_AREA>
174.64999999999998

> <JCHEM_REFRACTIVITY>
63.3139

> <JCHEM_ROTATABLE_BOND_COUNT>
4

> <JCHEM_RULE_OF_FIVE>
0

> <ALOGPS_SOLUBILITY>
7.51e+00 g/l

> <JCHEM_TRADITIONAL_IUPAC>
pseudouridine 5'-phosphate

> <JCHEM_VEBER_RULE>
0

$$$$

HMDB0001271
     RDKit          3D
Pseudouridine 5'-phosphate
 34 35  0  0  0  0  0  0  0  0999 V2000
   -4.4828    2.7658   -1.6486 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7232    1.9334   -1.0482 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3975    0.7802   -1.6562 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5968   -0.1292   -1.0581 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0947    0.1098    0.1974 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2197   -0.7730    0.9689 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.0032   -0.1245    1.1138 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.9928   -0.8725    0.5504 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.0262   -0.1033   -0.2117 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6506    0.8063    0.6589 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.8066    1.6390   -0.2652 P   0  0  0  0  0  5  0  0  0  0  0  0
    3.3778    1.7292   -1.6941 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.2715    0.8035   -0.1508 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.9805    3.1780    0.3710 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.3264   -1.8664   -0.4060 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.1023   -2.9945   -0.5087 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9651   -2.1029    0.3541 C   0  0  1  0  0  0  0  0  0  0  0  0
   -0.6532   -3.0083    1.3883 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4559    1.3142    0.7911 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0374    1.6138    1.9470 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2480    2.2030    0.1869 N   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7793    0.6041   -2.6070 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3307   -1.0490   -1.5330 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6690   -0.8985    1.9834 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5083   -1.4107    1.3743 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.7510   -0.8279   -0.6246 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5949    0.4513   -1.0740 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.1373   -0.1755   -0.1148 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.8331    3.1338    1.3565 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1574   -1.4024   -1.3826 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4307   -3.2832    0.3775 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7653   -2.5145   -0.2513 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.0051   -2.6404    2.0020 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5305    3.1112    0.6136 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0
  2  3  1  0
  3  4  1  0
  4  5  2  0
  5  6  1  0
  6  7  1  0
  7  8  1  0
  8  9  1  0
  9 10  1  0
 10 11  1  0
 11 12  2  0
 11 13  1  0
 11 14  1  0
  8 15  1  0
 15 16  1  0
 15 17  1  0
 17 18  1  0
  5 19  1  0
 19 20  2  0
 19 21  1  0
 21  2  1  0
 17  6  1  0
  3 22  1  0
  4 23  1  0
  6 24  1  1
  8 25  1  1
  9 26  1  0
  9 27  1  0
 13 28  1  0
 14 29  1  0
 15 30  1  6
 16 31  1  0
 17 32  1  6
 18 33  1  0
 21 34  1  0
M  END

HEADER    PROTEIN                                 28-APR-20   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   28-APR-20         0                                  
HETATM    1  O   UNK     0    8668.3588669.546   0.000  0.00  0.00           O+0
HETATM    2  O   UNK     0    8665.0248669.561   0.000  0.00  0.00           O+0
HETATM    3  C   UNK     0    8664.0748666.098   0.000  0.00  0.00           C+0
HETATM    4  O   UNK     0    8667.8978663.791   0.000  0.00  0.00           O+0
HETATM    5  O   UNK     0    8662.7438666.864   0.000  0.00  0.00           O+0
HETATM    6  P   UNK     0    8661.4138666.098   0.000  0.00  0.00           P+0
HETATM    7  O   UNK     0    8673.2188663.791   0.000  0.00  0.00           O+0
HETATM    8  O   UNK     0    8662.1838664.767   0.000  0.00  0.00           O+0
HETATM    9  O   UNK     0    8660.0788666.868   0.000  0.00  0.00           O+0
HETATM   10  O   UNK     0    8660.6468664.767   0.000  0.00  0.00           O+0
HETATM   11  O   UNK     0    8666.6578665.941   0.000  0.00  0.00           O+0
HETATM   12  C   UNK     0    8667.9028666.846   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0    8667.4278668.311   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0    8665.8878668.311   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0    8665.4118666.846   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0    8670.5588666.869   0.000  0.00  0.00           C+0
HETATM   17  C   UNK     0    8669.2248666.099   0.000  0.00  0.00           C+0
HETATM   18  C   UNK     0    8669.2248664.559   0.000  0.00  0.00           C+0
HETATM   19  N   UNK     0    8670.5588663.789   0.000  0.00  0.00           N+0
HETATM   20  C   UNK     0    8671.8928664.559   0.000  0.00  0.00           C+0
HETATM   21  N   UNK     0    8671.8928666.099   0.000  0.00  0.00           N+0
CONECT    1   13                                                            
CONECT    2   14                                                            
CONECT    3    5   15                                                       
CONECT    4   18                                                            
CONECT    5    3    6                                                       
CONECT    6    5    8    9   10                                             
CONECT    7   20                                                            
CONECT    8    6                                                            
CONECT    9    6                                                            
CONECT   10    6                                                            
CONECT   11   12   15                                                       
CONECT   12   13   11   17                                                  
CONECT   13   12   14    1                                                  
CONECT   14   13   15    2                                                  
CONECT   15   14   11    3                                                  
CONECT   16   17   21                                                       
CONECT   17   16   18   12                                                  
CONECT   18   17   19    4                                                  
CONECT   19   18   20                                                       
CONECT   20   19   21    7                                                  
CONECT   21   16   20                                                       
MASTER        0    0    0    0    0    0    0    0   21    0   44    0
END

COMPND    HMDB0001271
HETATM    1  O1  UNL     1      -4.483   2.766  -1.649  1.00  0.00           O  
HETATM    2  C1  UNL     1      -3.723   1.933  -1.048  1.00  0.00           C  
HETATM    3  N1  UNL     1      -3.398   0.780  -1.656  1.00  0.00           N  
HETATM    4  C2  UNL     1      -2.597  -0.129  -1.058  1.00  0.00           C  
HETATM    5  C3  UNL     1      -2.095   0.110   0.197  1.00  0.00           C  
HETATM    6  C4  UNL     1      -1.220  -0.773   0.969  1.00  0.00           C  
HETATM    7  O2  UNL     1      -0.003  -0.124   1.114  1.00  0.00           O  
HETATM    8  C5  UNL     1       0.993  -0.873   0.550  1.00  0.00           C  
HETATM    9  C6  UNL     1       2.026  -0.103  -0.212  1.00  0.00           C  
HETATM   10  O3  UNL     1       2.651   0.806   0.659  1.00  0.00           O  
HETATM   11  P1  UNL     1       3.807   1.639  -0.265  1.00  0.00           P  
HETATM   12  O4  UNL     1       3.378   1.729  -1.694  1.00  0.00           O  
HETATM   13  O5  UNL     1       5.271   0.803  -0.151  1.00  0.00           O  
HETATM   14  O6  UNL     1       3.980   3.178   0.371  1.00  0.00           O  
HETATM   15  C7  UNL     1       0.326  -1.866  -0.406  1.00  0.00           C  
HETATM   16  O7  UNL     1       1.102  -2.995  -0.509  1.00  0.00           O  
HETATM   17  C8  UNL     1      -0.965  -2.103   0.354  1.00  0.00           C  
HETATM   18  O8  UNL     1      -0.653  -3.008   1.388  1.00  0.00           O  
HETATM   19  C9  UNL     1      -2.456   1.314   0.791  1.00  0.00           C  
HETATM   20  O9  UNL     1      -2.037   1.614   1.947  1.00  0.00           O  
HETATM   21  N2  UNL     1      -3.248   2.203   0.187  1.00  0.00           N  
HETATM   22  H1  UNL     1      -3.779   0.604  -2.607  1.00  0.00           H  
HETATM   23  H2  UNL     1      -2.331  -1.049  -1.533  1.00  0.00           H  
HETATM   24  H3  UNL     1      -1.669  -0.898   1.983  1.00  0.00           H  
HETATM   25  H4  UNL     1       1.508  -1.411   1.374  1.00  0.00           H  
HETATM   26  H5  UNL     1       2.751  -0.828  -0.625  1.00  0.00           H  
HETATM   27  H6  UNL     1       1.595   0.451  -1.074  1.00  0.00           H  
HETATM   28  H7  UNL     1       5.137  -0.176  -0.115  1.00  0.00           H  
HETATM   29  H8  UNL     1       3.833   3.134   1.356  1.00  0.00           H  
HETATM   30  H9  UNL     1       0.157  -1.402  -1.383  1.00  0.00           H  
HETATM   31  H10 UNL     1       1.431  -3.283   0.377  1.00  0.00           H  
HETATM   32  H11 UNL     1      -1.765  -2.515  -0.251  1.00  0.00           H  
HETATM   33  H12 UNL     1       0.005  -2.640   2.002  1.00  0.00           H  
HETATM   34  H13 UNL     1      -3.531   3.111   0.614  1.00  0.00           H  
CONECT    1    2    2
CONECT    2    3   21
CONECT    3    4   22
CONECT    4    5    5   23
CONECT    5    6   19
CONECT    6    7   17   24
CONECT    7    8
CONECT    8    9   15   25
CONECT    9   10   26   27
CONECT   10   11
CONECT   11   12   12   13   14
CONECT   13   28
CONECT   14   29
CONECT   15   16   17   30
CONECT   16   31
CONECT   17   18   32
CONECT   18   33
CONECT   19   20   20   21
CONECT   21   34
END

HMDB0001271
     RDKit          3D
Pseudouridine 5'-phosphate
 34 35  0  0  0  0  0  0  0  0999 V2000
   -4.4828    2.7658   -1.6486 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7232    1.9334   -1.0482 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3975    0.7802   -1.6562 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5968   -0.1292   -1.0581 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0947    0.1098    0.1974 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.2197   -0.7730    0.9689 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.0032   -0.1245    1.1138 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.9928   -0.8725    0.5504 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.0262   -0.1033   -0.2117 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6506    0.8063    0.6589 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.8066    1.6390   -0.2652 P   0  0  0  0  0  5  0  0  0  0  0  0
    3.3778    1.7292   -1.6941 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.2715    0.8035   -0.1508 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.9805    3.1780    0.3710 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.3264   -1.8664   -0.4060 C   0  0  1  0  0  0  0  0  0  0  0  0
    1.1023   -2.9945   -0.5087 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9651   -2.1029    0.3541 C   0  0  1  0  0  0  0  0  0  0  0  0
   -0.6532   -3.0083    1.3883 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4559    1.3142    0.7911 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0374    1.6138    1.9470 O   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2480    2.2030    0.1869 N   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7793    0.6041   -2.6070 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3307   -1.0490   -1.5330 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6690   -0.8985    1.9834 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5083   -1.4107    1.3743 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.7510   -0.8279   -0.6246 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5949    0.4513   -1.0740 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.1373   -0.1755   -0.1148 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.8331    3.1338    1.3565 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1574   -1.4024   -1.3826 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4307   -3.2832    0.3775 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7653   -2.5145   -0.2513 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.0051   -2.6404    2.0020 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5305    3.1112    0.6136 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0
  2  3  1  0
  3  4  1  0
  4  5  2  0
  5  6  1  0
  6  7  1  0
  7  8  1  0
  8  9  1  0
  9 10  1  0
 10 11  1  0
 11 12  2  0
 11 13  1  0
 11 14  1  0
  8 15  1  0
 15 16  1  0
 15 17  1  0
 17 18  1  0
  5 19  1  0
 19 20  2  0
 19 21  1  0
 21  2  1  0
 17  6  1  0
  3 22  1  0
  4 23  1  0
  6 24  1  1
  8 25  1  1
  9 26  1  0
  9 27  1  0
 13 28  1  0
 14 29  1  0
 15 30  1  6
 16 31  1  0
 17 32  1  6
 18 33  1  0
 21 34  1  0
M  END

Synonyms

Value	Source
(1S)-1,4-Anhydro-1-(2,4-dioxo-1,2,3,4-tetrahydropyrimidin-5-yl)-5-O-phosphono-D-ribitol	ChEBI
5-(5-O-Phosphono-beta-D-ribofuranosyl)pyrimidine-2,4(1H,3H)-dione	ChEBI
5-(5-O-Phosphono-b-D-ribofuranosyl)pyrimidine-2,4(1H,3H)-dione	Generator
5-(5-O-Phosphono-β-D-ribofuranosyl)pyrimidine-2,4(1H,3H)-dione	Generator
Pseudouridine 5'-phosphoric acid	Generator
Pseudouridylic acid	MeSH, HMDB
5-(5-O-Phosphono-beta-D-ribofuranosyl)-2,4(1H,3H)-pyrimidinedione	HMDB
5-(5-O-Phosphono-β-D-ribofuranosyl)-2,4(1H,3H)-pyrimidinedione	HMDB
Pseudouridine 5'-phosphate	HMDB
Pseudouridine 5’-phosphate	HMDB
Pseudouridine monophosphate	HMDB

Molecular Formula

C₉H₁₃N₂O₉P

Average Mass

324.1813

Monoisotopic Mass

324.035866536

IUPAC Name

{[(2R,3S,4R,5S)-5-(2,4-dioxo-1,2,3,4-tetrahydropyrimidin-5-yl)-3,4-dihydroxyoxolan-2-yl]methoxy}phosphonic acid

Traditional Name

pseudouridine 5'-phosphate

CAS Registry Number

1157-60-4

SMILES

O[C@H]1[C@@H](O)[C@@H](O[C@@H]1COP(O)(O)=O)C1=CNC(=O)NC1=O

InChI Identifier

InChI=1S/C9H13N2O9P/c12-5-4(2-19-21(16,17)18)20-7(6(5)13)3-1-10-9(15)11-8(3)14/h1,4-7,12-13H,2H2,(H2,16,17,18)(H2,10,11,14,15)/t4-,5-,6-,7+/m1/s1

InChI Key

MOBMOJGXNHLLIR-GBNDHIKLSA-N

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as pentose phosphates. These are carbohydrate derivatives containing a pentose substituted by one or more phosphate groups.

Kingdom

Organic compounds

Super Class

Organic oxygen compounds

Class

Organooxygen compounds

Sub Class

Carbohydrates and carbohydrate conjugates

Direct Parent

Pentose phosphates

Alternative Parents

Substituents

Pentose phosphate
Pentose-5-phosphate
C-glycosyl compound
Glycosyl compound
Monosaccharide phosphate
Pyrimidone
Monoalkyl phosphate
Hydropyrimidine
Organic phosphoric acid derivative
Phosphoric acid ester
Pyrimidine
Alkyl phosphate
Tetrahydrofuran
Vinylogous amide
Heteroaromatic compound
Secondary alcohol
Urea
1,2-diol
Lactam
Dialkyl ether
Azacycle
Ether
Organoheterocyclic compound
Oxacycle
Organonitrogen compound
Alcohol
Organic oxide
Organopnictogen compound
Hydrocarbon derivative
Organic nitrogen compound
Aromatic heteromonocyclic compound

Molecular Framework

Aromatic heteromonocyclic compounds

External Descriptors

C-nucleoside phosphate (CHEBI:18116 )

Functional Ontology

Not Available

Physical Properties

State

Solid

Predicted Properties

Property	Value	Source
Water Solubility	7.51 g/L	ALOGPS
logP	-1.9	ALOGPS
logP	-3.2	ChemAxon
logS	-1.6	ALOGPS
pKa (Strongest Acidic)	1.23	ChemAxon
pKa (Strongest Basic)	-3.6	ChemAxon
Physiological Charge	-2	ChemAxon
Hydrogen Acceptor Count	8	ChemAxon
Hydrogen Donor Count	6	ChemAxon
Polar Surface Area	174.65 Å²	ChemAxon
Rotatable Bond Count	4	ChemAxon
Refractivity	63.31 m³·mol⁻¹	ChemAxon
Polarizability	26.32 Å³	ChemAxon
Number of Rings	2	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	No	ChemAxon
Ghose Filter	No	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	No	ChemAxon

Spectra

Spectrum Type	Description	Splash Key	Deposition Date	View
Predicted GC-MS	Predicted GC-MS Spectrum - GC-MS (Non-derivatized) - 70eV, Positive	splash10-0092-7921000000-3b484f48c79da75d22b9	2016-09-22	View Spectrum
Predicted GC-MS	Predicted GC-MS Spectrum - GC-MS (2 TMS) - 70eV, Positive	splash10-0zor-5984100000-c1d4654dc77f1a2defc3	2017-10-06	View Spectrum
Predicted GC-MS	Predicted GC-MS Spectrum - GC-MS (Non-derivatized) - 70eV, Positive	Not Available	2021-10-12	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Positive	splash10-004i-0669000000-0b19df9acf8df54d0c28	2015-09-14	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Positive	splash10-004j-4493000000-38400e5991956cb67184	2015-09-14	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Positive	splash10-000l-3900000000-ebfc1c181ae3a767f1d5	2015-09-14	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Negative	splash10-0096-9022000000-61eca04124385371e070	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Negative	splash10-004l-9000000000-d8f1a9a373cb543c5a50	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Negative	splash10-004i-9000000000-7662d761a5f16134b340	2015-09-15	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Negative	splash10-00fr-9007000000-706b8bb8bcb6e1f088ab	2021-09-23	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Negative	splash10-004i-9000000000-a5e502a2627af2048a1f	2021-09-23	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Negative	splash10-004i-9000000000-a5e502a2627af2048a1f	2021-09-23	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Positive	splash10-004i-0191000000-d8971429f6e3bcedb1b2	2021-09-24	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Positive	splash10-056r-0960000000-db21c37dfcf9636eeeb4	2021-09-24	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Positive	splash10-03di-2900000000-8e2c2edc3141326a4fb1	2021-09-24	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 100 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 200 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 300 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 400 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 500 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 600 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 700 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 800 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 900 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 1000 MHz, D₂O, predicted)		2021-09-16	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, D₂O, predicted)		2021-09-16	View Spectrum

Biological Properties

Cellular Locations

Not Available

Biospecimen Locations

Feces

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

Metabolic Reactions

Reactions

Reaction ID	Precursor	Product	Enzyme	Reaction Type	Data Source	Reference
MMDBr0010593	Pseudouridine 5'-phosphate	D-Ribose-5-phosphate	RNA pseudouridylate synthase domain containing 4		VMH; KEGG	30371894

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	Proteobacteria	19	Human ; Human feces; Human feces; pleural fluid plaque; bal; Human stool; Pig	Unknown
Bacteria	Tenericutes	2
Bacteria	Firmicutes	10	Human feces; Human
Bacteria	Spirochaetes	1	Pig
Bacteria	Chloroflexi	3
Bacteria	Actinobacteria	7	Human ; Human feces
Bacteria	Deinococcus-thermus	2
Bacteria	Thermotogae	9
Bacteria	Gemmatimonadetes	1
Bacteria	Acidobacteria	1
Eukaryota/Fungi	Ascomycota	3	Human feces; Human saliva	Unknown

Exposure Sources

Source Type	Species	Data Source	Reference
Animal	Chondrus crispus	FooDB	Manually Annotated
Animal	Laminaria	FooDB	Manually Annotated
Animal	Haliotis	FooDB	Manually Annotated
Animal	Strombidae	FooDB	Manually Annotated
Animal	Clupea harengus harengus	FooDB	Manually Annotated
Animal	Undaria pinnatifida	FooDB	Manually Annotated
Animal	Peprilus triacanthus	FooDB	Manually Annotated
Animal	Rhodophyta	FooDB	Manually Annotated
Animal	Myoxocephalus	FooDB	Manually Annotated
Animal	Eucheuma	FooDB	Manually Annotated
Animal	Saccharina japonica	FooDB	Manually Annotated
Animal	Spirulina	FooDB	Manually Annotated
Animal	Lota lota	FooDB	Manually Annotated
Animal	Porphyra umbilicalis	FooDB	Manually Annotated
Plant	Solanum tuberosum	FooDB	Manually Annotated
Plant	Olea europaea	FooDB	Manually Annotated
Plant	Sambucus	FooDB	Manually Annotated
Plant	Pinus	FooDB	Manually Annotated
Plant	Psidium guajava	FooDB	Manually Annotated
Plant	Syzygium cumini	FooDB	Manually Annotated
Plant	Tilia tomentosa	FooDB	Manually Annotated
Plant	Typha angustifolia	FooDB	Manually Annotated
Plant	Daucus carota	FooDB	Manually Annotated
Plant	Empetrum nigrum	FooDB	Manually Annotated
Plant	Valerianella locusta	FooDB	Manually Annotated
Plant	Myrica rubra	FooDB	Manually Annotated
Plant	Vaccinium vitis-idaea	FooDB	Manually Annotated
Plant	Vaccinium angustifolium x vaccinium corymbosum	FooDB	Manually Annotated
Plant	Sisymbrium	FooDB	Manually Annotated
Plant	Vanilla	FooDB	Manually Annotated
Plant	Carya	FooDB	Manually Annotated
Plant	Brassica oleracea l. var. capitata l. f. alba dc.	FooDB	Manually Annotated
Plant	Physalis philadelphica var. immaculata	FooDB	Manually Annotated
Plant	Vigna radiata	FooDB	Manually Annotated
Plant	Borago officinalis	FooDB	Manually Annotated
Plant	Raphanus sativus	FooDB	Manually Annotated
Plant	Prunus dulcis	FooDB	Manually Annotated
Plant	Hyssopus officinalis	FooDB	Manually Annotated
Plant	Manihot esculenta	FooDB	Manually Annotated
Plant	Beta vulgaris ssp. cicla	FooDB	Manually Annotated
Plant	Scorzonera hispanica	FooDB	Manually Annotated
Plant	Vigna unguiculata ssp. sesquipedalis	FooDB	Manually Annotated
Plant	Angelica keiskei	FooDB	Manually Annotated
Plant	Ipomoea aquatica	FooDB	Manually Annotated
Plant	Musa x paradisiaca	FooDB	Manually Annotated
Plant	Cuminum cyminum	FooDB	Manually Annotated
Plant	Rubus spectabilis	FooDB	Manually Annotated
Plant	Allium sativum	FooDB	Manually Annotated
Plant	Arachis hypogaea	FooDB	Manually Annotated
Plant	Rubus idaeus	FooDB	Manually Annotated
Plant	Cantharellus cibarius	FooDB	Manually Annotated
Plant	Sinapis alba	FooDB	Manually Annotated
Plant	Fragaria x ananassa	FooDB	Manually Annotated
Plant	Pyrus communis	FooDB	Manually Annotated
Plant	Brassica ruvo	FooDB	Manually Annotated
Plant	Apium graveolens var. secalinum	FooDB	Manually Annotated
Plant	Morus nigra	FooDB	Manually Annotated
Plant	Solanum lycopersicum	FooDB	Manually Annotated
Plant	Abelmoschus esculentus	FooDB	Manually Annotated
Plant	Moringa oleifera	FooDB	Manually Annotated
Plant	Pinus edulis	FooDB	Manually Annotated
Plant	Passiflora edulis	FooDB	Manually Annotated
Plant	Opuntia macrorhiza	FooDB	Manually Annotated
Plant	Vigna angularis	FooDB	Manually Annotated
Plant	Manilkara zapota	FooDB	Manually Annotated
Plant	Cucurbita pepo var. clypeata	FooDB	Manually Annotated
Plant	Helianthus annuus	FooDB	Manually Annotated
Plant	Mentha spicata	FooDB	Manually Annotated
Plant	Corylus	FooDB	Manually Annotated
Plant	Malus	FooDB	Manually Annotated
Plant	Pisum sativum	FooDB	Manually Annotated
Plant	Sambucus nigra	FooDB	Manually Annotated
Plant	Allium cepa	FooDB	Manually Annotated
Plant	Juglans	FooDB	Manually Annotated
Plant	Mangifera indica	FooDB	Manually Annotated
Plant	Petroselinum crispum	FooDB	Manually Annotated
Plant	Ribes nigrum	FooDB	Manually Annotated
Plant	Zingiber officinale	FooDB	Manually Annotated
Plant	Chamaemelum nobile	FooDB	Manually Annotated
Plant	Illicium verum	FooDB	Manually Annotated
Plant		FooDB	Manually Annotated
Plant	Laurus nobilis	FooDB	Manually Annotated
Plant	Auricularia auricula-judae	FooDB	Manually Annotated
Plant	Attalea speciosa	FooDB	Manually Annotated
Plant	Juglans ailanthifolia	FooDB	Manually Annotated
Plant	Melissa officinalis	FooDB	Manually Annotated
Plant	Hippophae rhamnoides	FooDB	Manually Annotated
Plant	Polygonum alpinum	FooDB	Manually Annotated
Plant	Brassica juncea	FooDB	Manually Annotated
Plant	Pediomelum esculentum	FooDB	Manually Annotated
Plant	Spinacia oleracea	FooDB	Manually Annotated
Plant	Auricularia polytricha	FooDB	Manually Annotated
Plant	Camellia oleifera	FooDB	Manually Annotated
Plant	Vaccinium corymbosum	FooDB	Manually Annotated
Plant	Chrysanthemum coronarium	FooDB	Manually Annotated
Plant	Eleocharis dulcis	FooDB	Manually Annotated
Plant	Thymus vulgaris	FooDB	Manually Annotated
Plant	Actinidia chinensis	FooDB	Manually Annotated
Plant	Carica papaya	FooDB	Manually Annotated
Plant	Pimenta dioica	FooDB	Manually Annotated
Plant	Medicago sativa	FooDB	Manually Annotated
Plant	Vigna mungo	FooDB	Manually Annotated
Plant	Rubus arcticus	FooDB	Manually Annotated
Plant	Agaricus bisporus	FooDB	Manually Annotated
Plant	Cajanus cajan	FooDB	Manually Annotated
Plant	Rumex articus	FooDB	Manually Annotated
Plant	Origanum majorana	FooDB	Manually Annotated
Plant	Armoracia rusticana	FooDB	Manually Annotated
Plant	Hibiscus sabdariffa	FooDB	Manually Annotated
Plant	Benincasa hispida	FooDB	Manually Annotated
Plant	Prunus persica	FooDB	Manually Annotated
Plant	Canarium ovatum	FooDB	Manually Annotated
Plant	Ribes aureum var. villosum	FooDB	Manually Annotated
Plant	Cucurbita pepo var. cylindrica	FooDB	Manually Annotated
Plant	Brassica oleracea var. gemmifera	FooDB	Manually Annotated
Plant	Foeniculum vulgare	FooDB	Manually Annotated
Plant	Phoenix dactylifera	FooDB	Manually Annotated
Plant	Vaccinium macrocarpon	FooDB	Manually Annotated
Plant		FooDB	Manually Annotated
Plant	Arctium lappa	FooDB	Manually Annotated
Plant	Brassica oleracea var. gongylodes	FooDB	Manually Annotated
Plant	Juglans cinerea	FooDB	Manually Annotated
Plant	Prunus cerasus	FooDB	Manually Annotated
Plant	Eruca vesicaria ssp. sativa	FooDB	Manually Annotated
Plant	Rosmarinus officinalis	FooDB	Manually Annotated
Plant	Artocarpus altilis	FooDB	Manually Annotated
Plant	Citrus x paradisi	FooDB	Manually Annotated
Plant	Vigna unguiculata	FooDB	Manually Annotated
Plant	Cynara scolymus	FooDB	Manually Annotated
Plant	Cyathea	FooDB	Manually Annotated
Plant	Metroxylon sagu	FooDB	Manually Annotated
Plant	Vitis rotundifolia	FooDB	Manually Annotated
Plant	Brosimum alicastrum	FooDB	Manually Annotated
Plant	Ficus carica	FooDB	Manually Annotated
Plant	Lentinus edodes	FooDB	Manually Annotated
Plant	Psidium cattleianum	FooDB	Manually Annotated
Plant	Beta vulgaris var. rubra	FooDB	Manually Annotated
Plant	Castanea mollissima	FooDB	Manually Annotated
Plant	Lepidium sativum	FooDB	Manually Annotated
Plant	Morus	FooDB	Manually Annotated
Plant	Helianthus tuberosus	FooDB	Manually Annotated
Plant	Phytolacca americana	FooDB	Manually Annotated
Plant	Grifola frondosa	FooDB	Manually Annotated
Plant	Vitis labrusca	FooDB	Manually Annotated
Plant	Tetragonia tetragonioides	FooDB	Manually Annotated
Plant	Artemisia vulgaris	FooDB	Manually Annotated
Plant	Cucumis metuliferus	FooDB	Manually Annotated
Plant	Nephelium lappaceum	FooDB	Manually Annotated
Plant	Myrica	FooDB	Manually Annotated
Plant		FooDB	Manually Annotated
Plant	Corylus avellana	FooDB	Manually Annotated
Plant	Castanea crenata	FooDB	Manually Annotated
Plant	Litchi chinensis	FooDB	Manually Annotated
Plant	Juglans regia	FooDB	Manually Annotated
Plant	Quercus	FooDB	Manually Annotated
Plant	Trigonella foenum-graecum	FooDB	Manually Annotated
Plant	Vaccinium angustifolium	FooDB	Manually Annotated
Plant	Malpighia emarginata	FooDB	Manually Annotated
Plant	Physalis	FooDB	Manually Annotated
Plant	Brassica oleracea var. sabauda	FooDB	Manually Annotated
Plant	Thelesperma	FooDB	Manually Annotated
Plant	Brassica napus	FooDB	Manually Annotated
Plant	Asparagus officinalis	FooDB	Manually Annotated
Plant	Chamerion angustifolium	FooDB	Manually Annotated
Plant	Levisticum officinale	FooDB	Manually Annotated
Plant	Pimpinella anisum	FooDB	Manually Annotated
Plant	Vaccinium elliottii	FooDB	Manually Annotated
Plant	Artemisia dracunculus	FooDB	Manually Annotated
Plant	Matricaria recutita	FooDB	Manually Annotated
Plant	Citrus aurantiifolia	FooDB	Manually Annotated
Plant	Ziziphus zizyphus	FooDB	Manually Annotated
Plant	Lactuca sativa	FooDB	Manually Annotated
Plant	Dimocarpus longan	FooDB	Manually Annotated
Plant	Eragrostis tef	FooDB	Manually Annotated
Plant	Salvia hispanica	FooDB	Manually Annotated
Plant	Pistacia vera	FooDB	Manually Annotated
Plant	Cynara cardunculus	FooDB	Manually Annotated
Plant	Vitellaria paradoxa	FooDB	Manually Annotated
Plant	Pangium edule	FooDB	Manually Annotated
Plant	Malus pumila	FooDB	Manually Annotated
Plant	Allium	FooDB	Manually Annotated
Plant	Brassica oleracea var. viridis	FooDB	Manually Annotated
Plant	Punica granatum	FooDB	Manually Annotated
Plant	Agave	FooDB	Manually Annotated
Plant	Hedysarum alpinum	FooDB	Manually Annotated
Plant	Diospyros	FooDB	Manually Annotated
Plant		FooDB	Manually Annotated
Plant	Vigna aconitifolia	FooDB	Manually Annotated
Plant	Amaranthus	FooDB	Manually Annotated
Plant	Gossypium	FooDB	Manually Annotated
Plant	Beta vulgaris	FooDB	Manually Annotated
Plant	Mammea americana	FooDB	Manually Annotated
Plant	Brassica alboglabra	FooDB	Manually Annotated
Plant	Annona squamosa	FooDB	Manually Annotated
Plant	Apium graveolens var. dulce	FooDB	Manually Annotated
Plant	Vitis	FooDB	Manually Annotated
Plant	Xanthosoma sagittifolium	FooDB	Manually Annotated
Plant	Basella alba	FooDB	Manually Annotated
Plant	Cucumis sativus	FooDB	Manually Annotated
Plant	Citrus latifolia	FooDB	Manually Annotated
Plant	Carya illinoinensis	FooDB	Manually Annotated
Plant	Capsicum baccatum var. baccatum	FooDB	Manually Annotated
Plant	Byrsonima crassifolia	FooDB	Manually Annotated
Plant	Capsicum pubescens	FooDB	Manually Annotated
Plant	Cinnamomum aromaticum	FooDB	Manually Annotated
Plant	Ribes rubrum	FooDB	Manually Annotated
Plant	Crateva religiosa	FooDB	Manually Annotated
Plant		FooDB	Manually Annotated
Plant	Vitis aestivalis	FooDB	Manually Annotated
Plant	Brassica rapa var. chinensis	FooDB	Manually Annotated
Plant	Eugenia javanica	FooDB	Manually Annotated
Plant	Portulaca oleracea	FooDB	Manually Annotated
Plant	Ipomoea batatas	FooDB	Manually Annotated
Plant	Mentha arvensis	FooDB	Manually Annotated
Plant	Pastinaca sativa	FooDB	Manually Annotated
Plant	Cucurbita maxima	FooDB	Manually Annotated
Plant	Vaccinium stamineum	FooDB	Manually Annotated
Plant	Solanum lycopersicum var. cerasiforme	FooDB	Manually Annotated
Plant	Chenopodium album	FooDB	Manually Annotated
Plant	Psophocarpus tetragonolobus	FooDB	Manually Annotated
Plant	Allium ampeloprasum	FooDB	Manually Annotated
Plant	Brassica oleracea	FooDB	Manually Annotated
Plant	Sechium edule	FooDB	Manually Annotated
Plant	Lactuca sativa l. var. longifolia	FooDB	Manually Annotated
Plant	Grataegosorbus mitschurinii	FooDB	Manually Annotated
Plant	Diospyros virginiana	FooDB	Manually Annotated
Plant	Origanum x majoricum	FooDB	Manually Annotated
Plant	Rubus x loganobaccus	FooDB	Manually Annotated
Plant	Tragopogon porrifolius	FooDB	Manually Annotated
Plant	Taraxacum officinale	FooDB	Manually Annotated
Plant	Rumex	FooDB	Manually Annotated
Plant	Allium ascalonicum	FooDB	Manually Annotated
Plant	Curcuma longa	FooDB	Manually Annotated
Plant	Rubus chamaemorus	FooDB	Manually Annotated
Plant	Elettaria cardamomum	FooDB	Manually Annotated
Plant	Citrullus lanatus var. fistulosus	FooDB	Manually Annotated
Plant	Ananas comosus	FooDB	Manually Annotated
Plant	Persea americana	FooDB	Manually Annotated
Plant	Amelanchier alnifolia	FooDB	Manually Annotated
Plant	Eugenia uniflora	FooDB	Manually Annotated
Plant	Annona reticulata	FooDB	Manually Annotated
Plant	Cichorium intybus	FooDB	Manually Annotated
Plant	Sesbania bispinosa	FooDB	Manually Annotated
Plant	Chenopodium quinoa	FooDB	Manually Annotated
Plant	Brassica oleracea var. botrytis	FooDB	Manually Annotated
Plant	Ribes x nidigrolaria	FooDB	Manually Annotated
Plant	Garcinia mangostana	FooDB	Manually Annotated
Plant	Cucumis melo	FooDB	Manually Annotated
Plant	Dioscorea pentaphylla	FooDB	Manually Annotated
Plant	Corchorus olitorius	FooDB	Manually Annotated
Plant	Juglans nigra	FooDB	Manually Annotated
Plant	Lathyrus sativus	FooDB	Manually Annotated
Plant	Allium tuberosum	FooDB	Manually Annotated
Plant	Cinnamomum verum	FooDB	Manually Annotated
Plant	Glycine max	FooDB	Manually Annotated
Plant	Gaylussacia baccata	FooDB	Manually Annotated
Plant	Petasites japonicus	FooDB	Manually Annotated
Plant	Prunus tomentosa	FooDB	Manually Annotated
Plant	Ocimum basilicum	FooDB	Manually Annotated
Plant	Mentha x piperita	FooDB	Manually Annotated
Plant	Maranta arundinacea	FooDB	Manually Annotated
Plant	Matteuccia struthiopteris	FooDB	Manually Annotated
Plant	Cucurbita moschata	FooDB	Manually Annotated
Plant	Macadamia	FooDB	Manually Annotated
Plant	Tilia	FooDB	Manually Annotated
Plant	Citrus limon	FooDB	Manually Annotated
Plant	Vaccinium myrtilloides	FooDB	Manually Annotated
Plant	Capsicum annuum var. annuum	FooDB	Manually Annotated
Plant	Apium graveolens var. rapaceum	FooDB	Manually Annotated
Plant	Papaver	FooDB	Manually Annotated
Plant	Rosa	FooDB	Manually Annotated
Plant	Nelumbo	FooDB	Manually Annotated
Plant	Brassica oleracea var. conica	FooDB	Manually Annotated
Plant	Sesamum orientale	FooDB	Manually Annotated
Plant	Annona cherimola	FooDB	Manually Annotated
Plant	Brassica rapa var. pekinensis	FooDB	Manually Annotated
Plant	Brassica rapa	FooDB	Manually Annotated
Plant	Lippia graveolens	FooDB	Manually Annotated
Plant	Prunus	FooDB	Manually Annotated
Plant	Capparis spinosa	FooDB	Manually Annotated
Plant	Citrus sinensis	FooDB	Manually Annotated
Plant	Lens culinaris	FooDB	Manually Annotated
Plant	Vaccinium deliciosum	FooDB	Manually Annotated
Plant	Phaseolus lunatus	FooDB	Manually Annotated
Plant	Artocarpus heterophyllus	FooDB	Manually Annotated
Plant	Prunus virginiana	FooDB	Manually Annotated
Plant	Musa acuminata	FooDB	Manually Annotated
Plant	Citrullus lanatus	FooDB	Manually Annotated
Plant	Linum usitatissimum	FooDB	Manually Annotated
Plant	Vigna unguiculata ssp. unguiculata	FooDB	Manually Annotated
Plant	Macadamia tetraphylla	FooDB	Manually Annotated
Plant	Phyllostachys edulis	FooDB	Manually Annotated
Plant	Lagenaria siceraria	FooDB	Manually Annotated
Plant	Prunus domestica	FooDB	Manually Annotated
Plant	Prunus armeniaca	FooDB	Manually Annotated
Plant	Carum carvi	FooDB	Manually Annotated
Plant	Allium schoenoprasum	FooDB	Manually Annotated
Plant	Carissa macrocarpa	FooDB	Manually Annotated
Plant	Citrus reticulata	FooDB	Manually Annotated
Plant	Satureja hortensis	FooDB	Manually Annotated
Plant	Averrhoa carambola	FooDB	Manually Annotated
Plant	Brassica rapa var. rapa	FooDB	Manually Annotated
Plant	Sorbus aucuparia	FooDB	Manually Annotated
Plant	Anethum graveolens	FooDB	Manually Annotated
Plant	Nelumbo nucifera	FooDB	Manually Annotated
Plant	Coriandrum sativum	FooDB	Manually Annotated
Plant	Bertholletia excelsa	FooDB	Manually Annotated
Plant	Brassica oleracea var. costata	FooDB	Manually Annotated
Plant	Panax	FooDB	Manually Annotated
Plant	Ceratonia siliqua	FooDB	Manually Annotated
Plant	Cymbopogon citratus	FooDB	Manually Annotated
Plant	Luffa aegyptiaca	FooDB	Manually Annotated
Plant	Anacardium occidentale	FooDB	Manually Annotated
Plant	Carthamus tinctorius	FooDB	Manually Annotated
Plant	Rubus occidentalis	FooDB	Manually Annotated
Plant	Vigna umbellata	FooDB	Manually Annotated
Plant	Cicer arietinum	FooDB	Manually Annotated
Plant	Allium fistulosum	FooDB	Manually Annotated
Plant	Capsicum	FooDB	Manually Annotated
Plant	Vaccinium alaskaense	FooDB	Manually Annotated
Plant	Lupinus	FooDB	Manually Annotated
Plant	Tilia cordata	FooDB	Manually Annotated
Plant	Camellia sinensis	FooDB	Manually Annotated
Plant	Prunus persica var. nucipersica	FooDB	Manually Annotated
Plant	Durio zibethinus	FooDB	Manually Annotated
Plant	Eriobotrya japonica	FooDB	Manually Annotated
Plant	Solanum lycopersicum var. lycopersicum	FooDB	Manually Annotated
Plant	Brassica napus var. pabularia	FooDB	Manually Annotated
Plant	Oenothera biennis	FooDB	Manually Annotated
Plant	Diospyros kaki	FooDB	Manually Annotated
Plant	Ribes glandulosum	FooDB	Manually Annotated
Plant	Phaseolus vulgaris	FooDB	Manually Annotated
Plant	Virola surinamensis	FooDB	Manually Annotated
Plant	Verbena officinalis	FooDB	Manually Annotated
Plant	Theobroma cacao	FooDB	Manually Annotated
Plant	Daucus carota ssp. sativus	FooDB	Manually Annotated
Plant	Vaccinium oxycoccos	FooDB	Manually Annotated
Plant	Rumex acetosa	FooDB	Manually Annotated
Plant	Syzygium aromaticum	FooDB	Manually Annotated
Plant	Pyrus pyrifolia	FooDB	Manually Annotated
Plant	Vaccinium myrtillus	FooDB	Manually Annotated
Plant	Vaccinium parvifolium	FooDB	Manually Annotated
Plant	Aloysia triphylla	FooDB	Manually Annotated
Plant	Brassica oleracea var. capitata	FooDB	Manually Annotated
Plant	Capsicum chinense	FooDB	Manually Annotated
Plant	Vicia faba	FooDB	Manually Annotated
Plant	Vaccinium reticulatum	FooDB	Manually Annotated
Plant	Solanum quitoense	FooDB	Manually Annotated
Plant	Ginkgo biloba	FooDB	Manually Annotated
Plant	Theobroma grandiflorum	FooDB	Manually Annotated
Plant	Vigna unguiculata ssp. cylindrica	FooDB	Manually Annotated
Plant	Flammulina velutipes	FooDB	Manually Annotated
Plant	Satureja montana	FooDB	Manually Annotated
Plant		FooDB	Manually Annotated
Plant	Vitis vinifera	FooDB	Manually Annotated
Plant	Citrus japonica	FooDB	Manually Annotated
Plant	Prunus avium	FooDB	Manually Annotated
Plant	Perideridia oregana	FooDB	Manually Annotated
Plant	Vaccinium arboreum	FooDB	Manually Annotated
Plant	Pouteria sapota	FooDB	Manually Annotated
Plant	Wasabia japonica	FooDB	Manually Annotated
Plant	Piper nigrum	FooDB	Manually Annotated
Plant	Origanum onites	FooDB	Manually Annotated
Plant	Capsicum annuum	FooDB	Manually Annotated
Plant	Origanum vulgare	FooDB	Manually Annotated
Plant	Viburnum edule	FooDB	Manually Annotated
Plant	Dioscorea	FooDB	Manually Annotated
Plant	Brassica oleracea var. italica	FooDB	Manually Annotated
Plant	Momordica charantia	FooDB	Manually Annotated
Plant	Vaccinium uliginosum	FooDB	Manually Annotated
Plant	Castanea	FooDB	Manually Annotated
Plant	Rubus ursinus x idaeus	FooDB	Manually Annotated
Plant	Pleurotus ostreatus	FooDB	Manually Annotated
Plant	Cirsium	FooDB	Manually Annotated
Plant	Solanum melongena	FooDB	Manually Annotated
Plant	Opuntia	FooDB	Manually Annotated
Plant	Raphanus sativus var. sativus	FooDB	Manually Annotated
Plant	Colocasia esculenta	FooDB	Manually Annotated
Plant	Prunus persica var. persica	FooDB	Manually Annotated
Plant	Anthriscus cerefolium	FooDB	Manually Annotated
Plant	Nuphar lutea	FooDB	Manually Annotated
Plant	Lupinus albus	FooDB	Manually Annotated
Plant	Myristica fragrans	FooDB	Manually Annotated
Plant	Pachyrhizus erosus	FooDB	Manually Annotated
Plant	Cichorium endivia	FooDB	Manually Annotated
Plant	Apium graveolens	FooDB	Manually Annotated
Plant	Elaeis	FooDB	Manually Annotated
Plant	Cinnamomum	FooDB	Manually Annotated
Plant	Ribes uva-crispa	FooDB	Manually Annotated
Plant	Feijoa sellowiana	FooDB	Manually Annotated
Plant	Dysphania ambrosioides	FooDB	Manually Annotated
Plant	Raphanus sativus var. niger	FooDB	Manually Annotated
Plant	Photinia melanocarpa	FooDB	Manually Annotated
Plant	Salvia officinalis	FooDB	Manually Annotated
Plant	Rheum rhabarbarum	FooDB	Manually Annotated
Plant	Vaccinium	FooDB	Manually Annotated
Plant	Lablab purpureus	FooDB	Manually Annotated
Plant	Crocus sativus	FooDB	Manually Annotated
Plant	Citrus maxima	FooDB	Manually Annotated
Plant	Syzygium jambos	FooDB	Manually Annotated
Plant	Salix pulchra	FooDB	Manually Annotated
Plant	Castanea sativa	FooDB	Manually Annotated
Plant	Cydonia oblonga	FooDB	Manually Annotated
Plant	Annona muricata	FooDB	Manually Annotated
Plant	Fagus	FooDB	Manually Annotated
Plant	Cucurbita	FooDB	Manually Annotated
Plant	Opuntia cochenillifera	FooDB	Manually Annotated
Plant	Vaccinium ovatum	FooDB	Manually Annotated
Plant	Cocos nucifera	FooDB	Manually Annotated
Plant	Phaseolus coccineus	FooDB	Manually Annotated
Plant	Thymus pulegioides	FooDB	Manually Annotated
Plant	Tamarindus indica	FooDB	Manually Annotated
Plant	Mespilus germanica	FooDB	Manually Annotated
Plant	Brassica rapa var. perviridis	FooDB	Manually Annotated
Plant	Cucurbita pepo var. cylindrica	FooDB	Manually Annotated
Plant	Mentha aquatica	FooDB	Manually Annotated
Plant	Salvia elegans	FooDB	Manually Annotated
Plant	Mentha	FooDB	Manually Annotated
Plant	Sagittaria latifolia	FooDB	Manually Annotated

Host Biospecimen and Location

Host and Biospecimen	Status	Mean	Std	Min	Max	Units	Age	Sex	Health Condition	Data Source	Reference
Human Feces	Detected but not Quantified									HMDB

External Links

HMDB ID

HMDB0001271

DrugBank ID

DB03829

Phenol Explorer Compound ID

Not Available

FooDB ID

FDB022525

KNApSAcK ID

Not Available

Chemspider ID

388535

KEGG Compound ID

C01168

BioCyc ID

PSEUDOURIDINE-5-P

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

439424

PDB ID

Not Available

ChEBI ID

18116

Food Biomarker Ontology

Not Available

References

Synthesis Reference

Not Available

General References

Charette M, Gray MW: Pseudouridine in RNA: what, where, how, and why. IUBMB Life. 2000 May;49(5):341-51. doi: 10.1080/152165400410182. [PubMed:10902565 ]
Brunk E, Sahoo S, Zielinski DC, Altunkaya A, Drager A, Mih N, Gatto F, Nilsson A, Preciat Gonzalez GA, Aurich MK, Prlic A, Sastry A, Danielsdottir AD, Heinken A, Noronha A, Rose PW, Burley SK, Fleming RMT, Nielsen J, Thiele I, Palsson BO: Recon3D enables a three-dimensional view of gene variation in human metabolism. Nat Biotechnol. 2018 Mar;36(3):272-281. doi: 10.1038/nbt.4072. Epub 2018 Feb 19. [PubMed:29457794 ]

Showing metabocard for Pseudouridine 5'-phosphate (MMDBc0029604)

MOL for #<Metabolite:0x00007fdb0d04c050>

3D MOL for #<Metabolite:0x00007fdb0d04c050>

3D SDF for #<Metabolite:0x00007fdb0d04c050>

3D-SDF for #<Metabolite:0x00007fdb0d04c050>

PDB for #<Metabolite:0x00007fdb0d04c050>

3D PDB for #<Metabolite:0x00007fdb0d04c050>

SMILES for #<Metabolite:0x00007fdb0d04c050>

INCHI for #<Metabolite:0x00007fdb0d04c050>

Structure for #<Metabolite:0x00007fdb0d04c050>

3D Structure for #<Metabolite:0x00007fdb0d04c050>