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Showing metabocard for 3-Hydroxyphenanthrene (HMDB0059799)

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Record Information
Version5.0
StatusDetected and Quantified
Creation Date2013-03-04 20:30:45 UTC
Update Date2023-02-21 17:29:24 UTC
HMDB IDHMDB0059799
Secondary Accession Numbers
  • HMDB59799
Metabolite Identification
Common Name3-Hydroxyphenanthrene
Description3-Hydroxyphenanthrene, also known as 3-phenanthrenol, belongs to the class of organic compounds known as phenanthrols. Phenanthrols are compounds containing a phenanthrene (or its hydrogenated derivative) to which a hydroxyl group is attached. These are polycyclic compounds containing a phenanthrene moiety, which is a tricyclic aromatic compound with three non-linearly fused benzene. 3-Hydroxyphenanthrene is an extremely weak basic (essentially neutral) compound (based on its pKa). 3-Hydroxyphenanthrene is a potentially toxic compound.
Structure
Data?1677000564
MOL3D MOLSDF3D SDFPDB3D PDBSMILESInChI

MOL for HMDB0059799 (3-Hydroxyphenanthrene)

  Mrv1652305261923572D          

 15 17  0  0  0  0            999 V2000
    5.3889    0.5097    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.9764   -0.2047    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6764   -0.2047    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.9764    1.2242    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.1514   -0.2047    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5014   -0.2047    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2639    0.5097    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7389    1.9387    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9139    1.9387    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.1514    1.2242    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7389    0.5097    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9139    0.5097    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5014    1.2242    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6764    1.2242    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2639   -0.9192    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  2  1  2  0  0  0  0
  4  1  1  0  0  0  0
  5  2  1  0  0  0  0
  6  3  2  0  0  0  0
  7  3  1  0  0  0  0
  9  8  2  0  0  0  0
 10  4  2  0  0  0  0
 10  8  1  0  0  0  0
 11  5  2  0  0  0  0
 11 10  1  0  0  0  0
 12  6  1  0  0  0  0
 12 11  1  0  0  0  0
 13  9  1  0  0  0  0
 13 12  2  0  0  0  0
 14  7  2  0  0  0  0
 14 13  1  0  0  0  0
 15  3  1  0  0  0  0
M  END
Download

3D MOL for HMDB0059799 (3-Hydroxyphenanthrene)

HMDB0059799
     RDKit          3D
3-Hydroxyphenanthrene
 25 27  0  0  0  0  0  0  0  0999 V2000
    3.9420   -1.4714   -0.0308 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.9197   -0.5136    0.0464 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2250    0.8055    0.2430 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1923    1.7071    0.3119 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8748    1.3111    0.1882 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1253    2.2623    0.2656 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4267    1.8609    0.1419 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7650    0.5256   -0.0586 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0839    0.1581   -0.1786 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4129   -1.1520   -0.3752 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4077   -2.0888   -0.4504 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0771   -1.7662   -0.3360 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7785   -0.4344   -0.1380 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.5393   -0.0320   -0.0133 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5751   -0.9112   -0.0790 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.2130   -1.8959    0.8611 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.2714    1.1160    0.3407 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.4096    2.7523    0.4664 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1602    3.3132    0.4245 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2406    2.5795    0.1973 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.8400    0.9424   -0.1111 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.4707   -1.4480   -0.4716 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7244   -3.1212   -0.6084 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3568   -2.5444   -0.4045 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3871   -1.9548   -0.2317 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  2  0
  3  4  1  0
  4  5  2  0
  5  6  1  0
  6  7  2  0
  7  8  1  0
  8  9  2  0
  9 10  1  0
 10 11  2  0
 11 12  1  0
 12 13  2  0
 13 14  1  0
 14 15  2  0
 15  2  1  0
 14  5  1  0
 13  8  1  0
  1 16  1  0
  3 17  1  0
  4 18  1  0
  6 19  1  0
  7 20  1  0
  9 21  1  0
 10 22  1  0
 11 23  1  0
 12 24  1  0
 15 25  1  0
M  END
Download

3D SDF for HMDB0059799 (3-Hydroxyphenanthrene)

  Mrv1652305261923572D          

 15 17  0  0  0  0            999 V2000
    5.3889    0.5097    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.9764   -0.2047    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6764   -0.2047    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.9764    1.2242    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.1514   -0.2047    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5014   -0.2047    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2639    0.5097    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7389    1.9387    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9139    1.9387    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.1514    1.2242    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7389    0.5097    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.9139    0.5097    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5014    1.2242    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6764    1.2242    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.2639   -0.9192    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  2  1  2  0  0  0  0
  4  1  1  0  0  0  0
  5  2  1  0  0  0  0
  6  3  2  0  0  0  0
  7  3  1  0  0  0  0
  9  8  2  0  0  0  0
 10  4  2  0  0  0  0
 10  8  1  0  0  0  0
 11  5  2  0  0  0  0
 11 10  1  0  0  0  0
 12  6  1  0  0  0  0
 12 11  1  0  0  0  0
 13  9  1  0  0  0  0
 13 12  2  0  0  0  0
 14  7  2  0  0  0  0
 14 13  1  0  0  0  0
 15  3  1  0  0  0  0
M  END
> <DATABASE_ID>
HMDB0059799

> <DATABASE_NAME>
hmdb

> <SMILES>
OC1=CC2=C(C=C1)C=CC1=CC=CC=C21

> <INCHI_IDENTIFIER>
InChI=1S/C14H10O/c15-12-8-7-11-6-5-10-3-1-2-4-13(10)14(11)9-12/h1-9,15H

> <INCHI_KEY>
NGPOABOEXMDQBT-UHFFFAOYSA-N

> <FORMULA>
C14H10O

> <MOLECULAR_WEIGHT>
194.2286

> <EXACT_MASS>
194.073164942

> <JCHEM_ACCEPTOR_COUNT>
1

> <JCHEM_ATOM_COUNT>
25

> <JCHEM_AVERAGE_POLARIZABILITY>
21.434937877237022

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
1

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
phenanthren-3-ol

> <ALOGPS_LOGP>
4.19

> <JCHEM_LOGP>
3.6486340076666663

> <ALOGPS_LOGS>
-4.57

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA_STRONGEST_ACIDIC>
9.747851960734685

> <JCHEM_PKA_STRONGEST_BASIC>
-5.498681314665196

> <JCHEM_POLAR_SURFACE_AREA>
20.23

> <JCHEM_REFRACTIVITY>
60.9393

> <JCHEM_ROTATABLE_BOND_COUNT>
0

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
5.26e-03 g/l

> <JCHEM_TRADITIONAL_IUPAC>
phenanthren-3-ol

> <JCHEM_VEBER_RULE>
1

$$$$
Download

3D-SDF for HMDB0059799 (3-Hydroxyphenanthrene)

HMDB0059799
     RDKit          3D
3-Hydroxyphenanthrene
 25 27  0  0  0  0  0  0  0  0999 V2000
    3.9420   -1.4714   -0.0308 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.9197   -0.5136    0.0464 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.2250    0.8055    0.2430 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.1923    1.7071    0.3119 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8748    1.3111    0.1882 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.1253    2.2623    0.2656 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4267    1.8609    0.1419 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7650    0.5256   -0.0586 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0839    0.1581   -0.1786 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.4129   -1.1520   -0.3752 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4077   -2.0888   -0.4504 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0771   -1.7662   -0.3360 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7785   -0.4344   -0.1380 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.5393   -0.0320   -0.0133 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.5751   -0.9112   -0.0790 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.2130   -1.8959    0.8611 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.2714    1.1160    0.3407 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.4096    2.7523    0.4664 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1602    3.3132    0.4245 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2406    2.5795    0.1973 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.8400    0.9424   -0.1111 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.4707   -1.4480   -0.4716 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7244   -3.1212   -0.6084 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.3568   -2.5444   -0.4045 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.3871   -1.9548   -0.2317 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  2  0
  3  4  1  0
  4  5  2  0
  5  6  1  0
  6  7  2  0
  7  8  1  0
  8  9  2  0
  9 10  1  0
 10 11  2  0
 11 12  1  0
 12 13  2  0
 13 14  1  0
 14 15  2  0
 15  2  1  0
 14  5  1  0
 13  8  1  0
  1 16  1  0
  3 17  1  0
  4 18  1  0
  6 19  1  0
  7 20  1  0
  9 21  1  0
 10 22  1  0
 11 23  1  0
 12 24  1  0
 15 25  1  0
M  END
Download

PDB for HMDB0059799 (3-Hydroxyphenanthrene)

HEADER    PROTEIN                                 26-MAY-19   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   26-MAY-19         0                                  
HETATM    1  C   UNK     0      10.059   0.951   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       9.289  -0.382   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       3.129  -0.382   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       9.289   2.285   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       7.749  -0.382   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       4.669  -0.382   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       2.359   0.951   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       6.979   3.619   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       5.439   3.619   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0       7.749   2.285   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0       6.979   0.951   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0       5.439   0.951   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0       4.669   2.285   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       3.129   2.285   0.000  0.00  0.00           C+0
HETATM   15  O   UNK     0       2.359  -1.716   0.000  0.00  0.00           O+0
CONECT    1    2    4                                                       
CONECT    2    1    5                                                       
CONECT    3    6    7   15                                                  
CONECT    4    1   10                                                       
CONECT    5    2   11                                                       
CONECT    6    3   12                                                       
CONECT    7    3   14                                                       
CONECT    8    9   10                                                       
CONECT    9    8   13                                                       
CONECT   10    4    8   11                                                  
CONECT   11    5   10   12                                                  
CONECT   12    6   11   13                                                  
CONECT   13    9   12   14                                                  
CONECT   14    7   13                                                       
CONECT   15    3                                                            
MASTER        0    0    0    0    0    0    0    0   15    0   34    0
END
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3D PDB for HMDB0059799 (3-Hydroxyphenanthrene)

COMPND    HMDB0059799
HETATM    1  O1  UNL     1       3.942  -1.471  -0.031  1.00  0.00           O  
HETATM    2  C1  UNL     1       2.920  -0.514   0.046  1.00  0.00           C  
HETATM    3  C2  UNL     1       3.225   0.806   0.243  1.00  0.00           C  
HETATM    4  C3  UNL     1       2.192   1.707   0.312  1.00  0.00           C  
HETATM    5  C4  UNL     1       0.875   1.311   0.188  1.00  0.00           C  
HETATM    6  C5  UNL     1      -0.125   2.262   0.266  1.00  0.00           C  
HETATM    7  C6  UNL     1      -1.427   1.861   0.142  1.00  0.00           C  
HETATM    8  C7  UNL     1      -1.765   0.526  -0.059  1.00  0.00           C  
HETATM    9  C8  UNL     1      -3.084   0.158  -0.179  1.00  0.00           C  
HETATM   10  C9  UNL     1      -3.413  -1.152  -0.375  1.00  0.00           C  
HETATM   11  C10 UNL     1      -2.408  -2.089  -0.450  1.00  0.00           C  
HETATM   12  C11 UNL     1      -1.077  -1.766  -0.336  1.00  0.00           C  
HETATM   13  C12 UNL     1      -0.778  -0.434  -0.138  1.00  0.00           C  
HETATM   14  C13 UNL     1       0.539  -0.032  -0.013  1.00  0.00           C  
HETATM   15  C14 UNL     1       1.575  -0.911  -0.079  1.00  0.00           C  
HETATM   16  H1  UNL     1       4.213  -1.896   0.861  1.00  0.00           H  
HETATM   17  H2  UNL     1       4.271   1.116   0.341  1.00  0.00           H  
HETATM   18  H3  UNL     1       2.410   2.752   0.466  1.00  0.00           H  
HETATM   19  H4  UNL     1       0.160   3.313   0.424  1.00  0.00           H  
HETATM   20  H5  UNL     1      -2.241   2.579   0.197  1.00  0.00           H  
HETATM   21  H6  UNL     1      -3.840   0.942  -0.111  1.00  0.00           H  
HETATM   22  H7  UNL     1      -4.471  -1.448  -0.472  1.00  0.00           H  
HETATM   23  H8  UNL     1      -2.724  -3.121  -0.608  1.00  0.00           H  
HETATM   24  H9  UNL     1      -0.357  -2.544  -0.404  1.00  0.00           H  
HETATM   25  H10 UNL     1       1.387  -1.955  -0.232  1.00  0.00           H  
CONECT    1    2   16
CONECT    2    3    3   15
CONECT    3    4   17
CONECT    4    5    5   18
CONECT    5    6   14
CONECT    6    7    7   19
CONECT    7    8   20
CONECT    8    9    9   13
CONECT    9   10   21
CONECT   10   11   11   22
CONECT   11   12   23
CONECT   12   13   13   24
CONECT   13   14
CONECT   14   15   15
CONECT   15   25
END
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SMILES for HMDB0059799 (3-Hydroxyphenanthrene)

OC1=CC2=C(C=C1)C=CC1=CC=CC=C21
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INCHI for HMDB0059799 (3-Hydroxyphenanthrene)

InChI=1S/C14H10O/c15-12-8-7-11-6-5-10-3-1-2-4-13(10)14(11)9-12/h1-9,15H
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View in JSmolView Stereo Labels
Synonyms
ValueSource
3-PhenanthrenolChEBI
3-HydroxyphenanthreneChEBI
Chemical FormulaC14H10O
Average Molecular Weight194.2286
Monoisotopic Molecular Weight194.073164942
IUPAC Namephenanthren-3-ol
Traditional Namephenanthren-3-ol
CAS Registry NumberNot Available
SMILES
OC1=CC2=C(C=C1)C=CC1=CC=CC=C21
InChI Identifier
InChI=1S/C14H10O/c15-12-8-7-11-6-5-10-3-1-2-4-13(10)14(11)9-12/h1-9,15H
InChI KeyNGPOABOEXMDQBT-UHFFFAOYSA-N
Chemical Taxonomy
Description Belongs to the class of organic compounds known as phenanthrols. Phenanthrols are compounds containing a phenanthrene (or its hydrogenated derivative) to which a hydroxyl group is attached.
KingdomOrganic compounds
Super ClassBenzenoids
ClassPhenanthrenes and derivatives
Sub ClassPhenanthrols
Direct ParentPhenanthrols
Alternative Parents
Substituents
  • Phenanthrol
  • 2-naphthol
  • Naphthalene
  • 1-hydroxy-2-unsubstituted benzenoid
  • Organic oxygen compound
  • Hydrocarbon derivative
  • Organooxygen compound
  • Aromatic homopolycyclic compound
Molecular FrameworkAromatic homopolycyclic compounds
External Descriptors
Ontology
Physiological effectNot Available
Disposition
Biological location
ProcessNot Available
Role
Industrial application
Physical Properties
StateNot Available
Experimental Molecular Properties
PropertyValueReference
Melting PointNot AvailableNot Available
Boiling PointNot AvailableNot Available
Water SolubilityNot AvailableNot Available
LogPNot AvailableNot Available
Experimental Chromatographic PropertiesNot Available
Predicted Molecular Properties
Predicted Chromatographic Properties
Spectra
Biological Properties
Cellular Locations
  • Membrane (predicted from logP)
Biospecimen Locations
  • Urine
Tissue LocationsNot Available
Pathways
Normal Concentrations
BiospecimenStatusValueAgeSexConditionReferenceDetails
UrineDetected and Quantified0.0000575 (0.0000531-0.0000623) umol/mmol creatinineAdult (>18 years old)Not SpecifiedNormal
    • National Health a...
 details
UrineDetected and Quantified0.0000716 (0.0000623-0.0000827) umol/mmol creatinineChildren (1-13 years old)Not SpecifiedNormal
    • National Health a...
 details
UrineDetected and Quantified0.00093-0.0179 umol/mmol creatinineAdult (>18 years old)MaleWorkers in coking plants details
Abnormal Concentrations
Not Available
Associated Disorders and Diseases
Disease ReferencesNone
Associated OMIM IDsNone
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FooDB IDNot Available
KNApSAcK IDNot Available
Chemspider IDNot Available
KEGG Compound IDNot Available
BioCyc IDNot Available
BiGG IDNot Available
Wikipedia LinkPhenanthrenoid
METLIN IDNot Available
PubChem Compound95724
PDB IDNot Available
ChEBI ID20184
Food Biomarker OntologyNot Available
VMH IDNot Available
MarkerDB IDMDB00029796
Good Scents IDNot Available
References
Synthesis ReferenceNot Available
Material Safety Data Sheet (MSDS)Not Available
General ReferencesNot Available