MiMeDB: Showing metabocard for D-5-phenylhydantoin (MMDBc0055845)

Record Information

Version

2.0

Status

Detected and Quantified

Creation Date

2022-06-17 20:08:36 UTC

Update Date

2025-10-07 16:09:24 UTC

Metabolite ID

MMDBc0055845

Metabolite Identification

Common Name

D-5-phenylhydantoin

Description

D-5-phenylhydantoin is a member of the hydantoin chemical class. There is limited literature available on this metabolite, indicating a need for further research to understand its properties and potential biological significance.

Structure

MOL SDF PDB SMILES InChI


  Mrv1652306172222082D          

 14 15  0  0  1  0            999 V2000
    2.7512    4.7652    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0367    4.3527    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4656    4.3527    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.0367    3.5277    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4656    3.5277    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.7512    3.1152    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.7512    2.2902    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.0837    1.8053    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1637    1.0206    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4186    1.8053    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    2.3387    1.0206    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.2991    2.0602    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    3.6486    0.3532    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.0161    2.6647    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
  2  1  2  0  0  0  0
  3  1  1  0  0  0  0
  4  2  1  0  0  0  0
  5  3  2  0  0  0  0
  6  4  2  0  0  0  0
  6  5  1  0  0  0  0
  7  6  1  1  0  0  0
  8  7  1  0  0  0  0
 10  7  1  0  0  0  0
 10  9  2  0  0  0  0
 11  8  2  0  0  0  0
 11  9  1  0  0  0  0
 12  8  1  0  0  0  0
 13  9  1  0  0  0  0
  7 14  1  6  0  0  0
M  END
> <DATABASE_ID>
MMDBc0055845

> <DATABASE_NAME>
MIME

> <SMILES>
[H][C@@]1(N=C(O)N=C1O)C1=CC=CC=C1

> <INCHI_IDENTIFIER>
InChI=1S/C9H8N2O2/c12-8-7(10-9(13)11-8)6-4-2-1-3-5-6/h1-5,7H,(H2,10,11,12,13)/t7-/m1/s1

> <INCHI_KEY>
NXQJDVBMMRCKQG-SSDOTTSWSA-N

> <FORMULA>
C9H8N2O2

> <MOLECULAR_WEIGHT>
176.175

> <EXACT_MASS>
176.058577506

> <JCHEM_ACCEPTOR_COUNT>
4

> <JCHEM_ATOM_COUNT>
21

> <JCHEM_AVERAGE_POLARIZABILITY>
17.16388749007436

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
2

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(4R)-4-phenyl-4H-imidazole-2,5-diol

> <JCHEM_LOGP>
1.739613868666667

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
4.37498665812527

> <JCHEM_PKA_STRONGEST_ACIDIC>
2.829254267946624

> <JCHEM_PKA_STRONGEST_BASIC>
0.030387804565248255

> <JCHEM_POLAR_SURFACE_AREA>
65.18

> <JCHEM_REFRACTIVITY>
46.4474

> <JCHEM_ROTATABLE_BOND_COUNT>
1

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
(5R)-5-phenyl-5H-imidazole-2,4-diol

> <JCHEM_VEBER_RULE>
0

$$$$

HEADER    PROTEIN                                 17-JUN-22   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   17-JUN-22         0                                  
HETATM    1  C   UNK     0       5.136   8.895   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0       3.802   8.125   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0       6.469   8.125   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0       3.802   6.585   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0       6.469   6.585   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0       5.136   5.815   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0       5.136   4.275   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0       3.890   3.370   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0       5.906   1.905   0.000  0.00  0.00           C+0
HETATM   10  N   UNK     0       6.381   3.370   0.000  0.00  0.00           N+0
HETATM   11  N   UNK     0       4.366   1.905   0.000  0.00  0.00           N+0
HETATM   12  O   UNK     0       2.425   3.846   0.000  0.00  0.00           O+0
HETATM   13  O   UNK     0       6.811   0.659   0.000  0.00  0.00           O+0
HETATM   14  H   UNK     0       3.763   4.974   0.000  0.00  0.00           H+0
CONECT    1    2    3                                                       
CONECT    2    1    4                                                       
CONECT    3    1    5                                                       
CONECT    4    2    6                                                       
CONECT    5    3    6                                                       
CONECT    6    4    5    7                                                  
CONECT    7    6    8   10   14                                             
CONECT    8    7   11   12                                                  
CONECT    9   10   11   13                                                  
CONECT   10    7    9                                                       
CONECT   11    8    9                                                       
CONECT   12    8                                                            
CONECT   13    9                                                            
CONECT   14    7                                                            
MASTER        0    0    0    0    0    0    0    0   14    0   30    0
END

Synonyms

Not Available

Molecular Formula

C₉H₈N₂O₂

Average Mass

176.175

Monoisotopic Mass

176.058577506

IUPAC Name

(4R)-4-phenyl-4H-imidazole-2,5-diol

Traditional Name

(5R)-5-phenyl-5H-imidazole-2,4-diol

CAS Registry Number

Not Available

SMILES

[H][C@@]1(N=C(O)N=C1O)C1=CC=CC=C1

InChI Identifier

InChI=1S/C9H8N2O2/c12-8-7(10-9(13)11-8)6-4-2-1-3-5-6/h1-5,7H,(H2,10,11,12,13)/t7-/m1/s1

InChI Key

NXQJDVBMMRCKQG-SSDOTTSWSA-N

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as phenylhydantoins. These are heterocyclic aromatic compounds containing an imiazolidinedione moiety substituted by a phenyl group.

Kingdom

Organic compounds

Super Class

Organoheterocyclic compounds

Class

Azolidines

Sub Class

Imidazolidines

Direct Parent

Phenylhydantoins

Alternative Parents

Substituents

5-phenylhydantoin
Phenylimidazolidine
Alpha-amino acid or derivatives
5-monosubstituted hydantoin
N-acyl urea
Ureide
Monocyclic benzene moiety
Benzenoid
Dicarboximide
Urea
Carbonic acid derivative
Carboxylic acid derivative
Azacycle
Hydrocarbon derivative
Organic oxide
Organooxygen compound
Organonitrogen compound
Organopnictogen compound
Organic nitrogen compound
Carbonyl group
Organic oxygen compound
Aromatic heteromonocyclic compound

Molecular Framework

Aromatic heteromonocyclic compounds

External Descriptors

Not Available

Functional Ontology

Not Available

Physical Properties

State

Expected Solid

Predicted Properties

Property	Value	Source
logP	1.74	ChemAxon
pKa (Strongest Acidic)	2.83	ChemAxon
pKa (Strongest Basic)	0.03	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	4	ChemAxon
Hydrogen Donor Count	2	ChemAxon
Polar Surface Area	65.18 Å²	ChemAxon
Rotatable Bond Count	1	ChemAxon
Refractivity	46.45 m³·mol⁻¹	ChemAxon
Polarizability	17.16 Å³	ChemAxon
Number of Rings	2	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	Yes	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 (TMS_1_1) - 70eV, Positive	Not Available	2022-08-08	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Positive	Not Available	2022-08-10	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Positive	Not Available	2022-08-10	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Positive	Not Available	2022-08-10	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 10V, Negative	Not Available	2022-08-10	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 20V, Negative	Not Available	2022-08-10	View Spectrum
Predicted LC-MS/MS	Predicted LC-MS/MS Spectrum - 40V, Negative	Not Available	2022-08-10	View Spectrum
MS	Mass Spectrum (Electron Ionization)	Not Available	2022-08-06	View Spectrum

Chromatographic Retention Times and Retention Indices

Retention Times

Not Available

Retention Indices

Chromatography Type	Peak Label	SMILES	Stationary Phase	Deposition Date	Retention Index
Gas Chromatography	D-5-phenylhydantoin_TMS_1	C[Si](C)(C)OC1=N[C@H](C2=CC=CC=C2)C(O)=N1	standard non polar	2025-10-24	1753.79
Gas Chromatography	D-5-phenylhydantoin_TMS_2	C[Si](C)(C)OC1=NC(O)=N[C@@H]1C1=CC=CC=C1	standard non polar	2025-10-24	2086.6
Gas Chromatography	D-5-phenylhydantoin_TMS_3	C[Si](C)(C)OC1=N[C@H](C2=CC=CC=C2)C(O[Si](C)(C)C)=N1	standard non polar	2025-10-24	1489.35
Gas Chromatography	D-5-phenylhydantoin_TMS_1	C[Si](C)(C)OC1=N[C@H](C2=CC=CC=C2)C(O)=N1	standard polar	2025-10-24	2655.08
Gas Chromatography	D-5-phenylhydantoin_TMS_2	C[Si](C)(C)OC1=NC(O)=N[C@@H]1C1=CC=CC=C1	standard polar	2025-10-24	1665.99
Gas Chromatography	D-5-phenylhydantoin_TMS_3	C[Si](C)(C)OC1=N[C@H](C2=CC=CC=C2)C(O[Si](C)(C)C)=N1	standard polar	2025-10-24	2935.19

Biological Properties

Cellular Locations

Not Available

Biospecimen Locations

Not Available

Tissue Locations

Not Available

Associated OMIM IDs

114500 (Colorectal cancer)
610247 (Eosinophilic esophagitis)

Human Proteins and Enzymes

Protein ID	Protein Name	Protein Type	Uniprot ID	Species

Human Pathways

Pathways

Name	SMPDB/PathBank

Microbial Pathways

Pathways

Not Available

Metabolic Reactions

Reactions

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

See All Associated Reactions

Reaction ID	Precursor	Product	Enzyme	Reaction Type	Data Source	Reference

Health Effects and Bioactivity

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

Microbial Sources

Superkingdom/Kingdom	Phylum	Total species	Hosts and Body Sites	Microbial Links
Bacteria/Eubacteria	Proteobacteria	18	Human ; Human feces
Bacteria	Proteobacteria	2	Human ; Human feces

Exposure Sources

Other Exposures

Source Type	Data Source	Reference

Host Biospecimen and Location

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

External Links

HMDB ID

Not Available

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FooDB ID

Not Available

KNApSAcK ID

Not Available

Chemspider ID

643931

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

736834

PDB ID

Not Available

ChEBI ID

Not Available

Food Biomarker Ontology

Not Available

CMMC Knowledgebase

Not Available

General References

Bansal P, Morgat A, Axelsen KB, Muthukrishnan V, Coudert E, Aimo L, Hyka-Nouspikel N, Gasteiger E, Kerhornou A, Neto TB, Pozzato M, Blatter MC, Ignatchenko A, Redaschi N, Bridge A: Rhea, the reaction knowledgebase in 2022. Nucleic Acids Res. 2022 Jan 7;50(D1):D693-D700. doi: 10.1093/nar/gkab1016. [PubMed:34755880 ]

Showing metabocard for D-5-phenylhydantoin (MMDBc0055845)

MOL for #<Metabolite:0x00007faddd541db0>

3D MOL for #<Metabolite:0x00007faddd541db0>

3D SDF for #<Metabolite:0x00007faddd541db0>

3D-SDF for #<Metabolite:0x00007faddd541db0>

PDB for #<Metabolite:0x00007faddd541db0>

3D PDB for #<Metabolite:0x00007faddd541db0>

SMILES for #<Metabolite:0x00007faddd541db0>

INCHI for #<Metabolite:0x00007faddd541db0>

Structure for #<Metabolite:0x00007faddd541db0>

3D Structure for #<Metabolite:0x00007faddd541db0>