MiMeDB: Showing metabocard for Prolylhydroxyproline (MMDBc0000616)

Record Information

Version

1.0

Status

Detected and Quantified

Creation Date

2020-12-10 18:51:11 UTC

Update Date

2024-04-30 19:33:18 UTC

Metabolite ID

MMDBc0000616

Metabolite Identification

Common Name

Prolylhydroxyproline

Description

Prolylhydroxyproline is a dipeptide. Prolylhydroxyproline is a marker of bone collagen degradation, showing high sensitivity for the diagnosis of osteoporosis. Prolylhydroxyproline has been suggested as a possible alternative to hydroxyproline determination in bone resorption studies. Prolylhydroxyproline is one of the iminodipeptides present in the urine of patients with prolidase deficiency. Prolidase (X-Pro dipeptidase EC 3.4.13.9) splits iminodipeptides containing C-terminal proline or hydroxyproline (X-Pro or X-Hyp) to X+Pro or X+Hyp. Prolidase deficiency is a rare autosomal recessive disease characterized by chronic ulcerative dermatitis and mental retardation. These patients excrete large amounts of iminodipeptides containing C-terminal proline in the urine due to hereditary prolidase deficiency (PMID: 12636053 , 11863289 , 2387877 , 1874885 , 9586797 ).

Structure

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

HMDB0006695
     RDKit          3D
Prolylhydroxyproline
 32 33  0  0  0  0  0  0  0  0999 V2000
   -3.9392    1.3679   -1.8568 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6883    1.0613   -1.7472 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8930    1.6488   -2.6806 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3247    0.1695   -0.6871 C   0  0  2  0  0  0  0  0  0  0  0  0
   -2.7165    0.6352    0.7017 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8994   -0.3259    1.5807 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.7475   -1.1156    2.3489 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1457   -1.1976    0.6069 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9669   -0.2015   -0.4865 N   0  0  0  0  0  0  0  0  0  0  0  0
    0.2755    0.1510   -1.0278 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4455    0.9618   -1.9692 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.5316   -0.4601   -0.4748 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.9072    0.1826    0.8395 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4044   -0.0848    0.9410 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7776   -0.4799   -0.4590 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6750   -0.0098   -1.2929 N   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6224    2.6194   -2.7159 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8881   -0.8123   -0.8023 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3898    1.6450    0.9397 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7920    0.4482    0.9149 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1950    0.2372    2.2308 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1259   -1.8010    1.7491 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2338   -1.6393    0.9473 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8833   -1.9098    0.1757 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4491   -1.5381   -0.4689 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7192    1.2663    0.7443 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4576   -0.2376    1.7280 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.6142   -0.8966    1.6389 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.8968    0.8731    1.2096 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.7167    0.0038   -0.7704 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.8616   -1.5811   -0.5696 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.7196    1.0198   -1.2879 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0
  2  3  1  0
  2  4  1  0
  4  5  1  0
  5  6  1  0
  6  7  1  0
  6  8  1  0
  8  9  1  0
  9 10  1  0
 10 11  2  0
 10 12  1  0
 12 13  1  0
 13 14  1  0
 14 15  1  0
 15 16  1  0
  9  4  1  0
 16 12  1  0
  3 17  1  0
  4 18  1  6
  5 19  1  0
  5 20  1  0
  6 21  1  1
  7 22  1  0
  8 23  1  0
  8 24  1  0
 12 25  1  1
 13 26  1  0
 13 27  1  0
 14 28  1  0
 14 29  1  0
 15 30  1  0
 15 31  1  0
 16 32  1  0
M  END


  Mrv1652307041922002D          

 16 17  0  0  0  0            999 V2000
10002.1009 9999.6179    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
10002.8128 9999.2054    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
10002.100910000.4412    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
 9999.8095 9997.7700    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
10000.7175 9999.7002    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
10000.0502 9999.2152    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
10000.3051 9998.4306    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
10001.1301 9998.4306    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
10001.3850 9999.2152    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
10000.717510000.5252    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
10001.432010000.9377    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
10000.003110000.9377    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
 9999.916810001.7581    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
 9999.109810001.9297    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
 9998.697310001.2152    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
 9999.249410000.6022    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
  1  3  2  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
  5  6  1  0  0  0  0
  5  9  1  0  0  0  0
  7  4  1  1  0  0  0
  9  1  1  6  0  0  0
  5 10  1  0  0  0  0
 10 11  2  0  0  0  0
 14 15  1  0  0  0  0
 15 16  1  0  0  0  0
 12 16  1  0  0  0  0
 13 14  1  0  0  0  0
 12 13  1  0  0  0  0
 12 10  1  6  0  0  0
M  END
> <DATABASE_ID>
MMDBc0000616

> <DATABASE_NAME>
MIME

> <SMILES>
O[C@@H]1C[C@H](N(C1)C(=O)[C@@H]1CCCN1)C(O)=O

> <INCHI_IDENTIFIER>
InChI=1S/C10H16N2O4/c13-6-4-8(10(15)16)12(5-6)9(14)7-2-1-3-11-7/h6-8,11,13H,1-5H2,(H,15,16)/t6-,7+,8+/m1/s1

> <INCHI_KEY>
ONPXCLZMBSJLSP-CSMHCCOUSA-N

> <FORMULA>
C10H16N2O4

> <MOLECULAR_WEIGHT>
228.245

> <EXACT_MASS>
228.11100701

> <JCHEM_ACCEPTOR_COUNT>
5

> <JCHEM_ATOM_COUNT>
32

> <JCHEM_AVERAGE_POLARIZABILITY>
22.319425498540514

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(2S,4R)-4-hydroxy-1-[(2S)-pyrrolidine-2-carbonyl]pyrrolidine-2-carboxylic acid

> <JCHEM_LOGP>
-3.980841221369723

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
2

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
14.826419781209651

> <JCHEM_PKA_STRONGEST_ACIDIC>
3.5386018000615693

> <JCHEM_PKA_STRONGEST_BASIC>
9.817399252166704

> <JCHEM_POLAR_SURFACE_AREA>
89.86999999999999

> <JCHEM_REFRACTIVITY>
54.36870000000002

> <JCHEM_ROTATABLE_BOND_COUNT>
2

> <JCHEM_RULE_OF_FIVE>
1

> <JCHEM_TRADITIONAL_IUPAC>
proline-hydroxyproline

> <JCHEM_VEBER_RULE>
0

$$$$

HMDB0006695
     RDKit          3D
Prolylhydroxyproline
 32 33  0  0  0  0  0  0  0  0999 V2000
   -3.9392    1.3679   -1.8568 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6883    1.0613   -1.7472 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8930    1.6488   -2.6806 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3247    0.1695   -0.6871 C   0  0  2  0  0  0  0  0  0  0  0  0
   -2.7165    0.6352    0.7017 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8994   -0.3259    1.5807 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.7475   -1.1156    2.3489 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1457   -1.1976    0.6069 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9669   -0.2015   -0.4865 N   0  0  0  0  0  0  0  0  0  0  0  0
    0.2755    0.1510   -1.0278 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4455    0.9618   -1.9692 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.5316   -0.4601   -0.4748 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.9072    0.1826    0.8395 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4044   -0.0848    0.9410 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7776   -0.4799   -0.4590 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6750   -0.0098   -1.2929 N   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6224    2.6194   -2.7159 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8881   -0.8123   -0.8023 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3898    1.6450    0.9397 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7920    0.4482    0.9149 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1950    0.2372    2.2308 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1259   -1.8010    1.7491 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2338   -1.6393    0.9473 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8833   -1.9098    0.1757 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4491   -1.5381   -0.4689 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7192    1.2663    0.7443 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4576   -0.2376    1.7280 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.6142   -0.8966    1.6389 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.8968    0.8731    1.2096 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.7167    0.0038   -0.7704 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.8616   -1.5811   -0.5696 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.7196    1.0198   -1.2879 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0
  2  3  1  0
  2  4  1  0
  4  5  1  0
  5  6  1  0
  6  7  1  0
  6  8  1  0
  8  9  1  0
  9 10  1  0
 10 11  2  0
 10 12  1  0
 12 13  1  0
 13 14  1  0
 14 15  1  0
 15 16  1  0
  9  4  1  0
 16 12  1  0
  3 17  1  0
  4 18  1  6
  5 19  1  0
  5 20  1  0
  6 21  1  1
  7 22  1  0
  8 23  1  0
  8 24  1  0
 12 25  1  1
 13 26  1  0
 13 27  1  0
 14 28  1  0
 14 29  1  0
 15 30  1  0
 15 31  1  0
 16 32  1  0
M  END

HEADER    PROTEIN                                 04-JUL-19   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   04-JUL-19         0                                  
HETATM    1  C   UNK     0    8670.5888665.953   0.000  0.00  0.00           C+0
HETATM    2  O   UNK     0    8671.9178665.183   0.000  0.00  0.00           O+0
HETATM    3  O   UNK     0    8670.5888667.490   0.000  0.00  0.00           O+0
HETATM    4  O   UNK     0    8666.3118662.504   0.000  0.00  0.00           O+0
HETATM    5  N   UNK     0    8668.0068666.107   0.000  0.00  0.00           N+0
HETATM    6  C   UNK     0    8666.7608665.202   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0    8667.2368663.737   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0    8668.7768663.737   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0    8669.2528665.202   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0    8668.0068667.647   0.000  0.00  0.00           C+0
HETATM   11  O   UNK     0    8669.3408668.417   0.000  0.00  0.00           O+0
HETATM   12  C   UNK     0    8666.6728668.417   0.000  0.00  0.00           C+0
HETATM   13  N   UNK     0    8666.5118669.948   0.000  0.00  0.00           N+0
HETATM   14  C   UNK     0    8665.0058670.269   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0    8664.2358668.935   0.000  0.00  0.00           C+0
HETATM   16  C   UNK     0    8665.2668667.791   0.000  0.00  0.00           C+0
CONECT    1    2    3    9                                                  
CONECT    2    1                                                            
CONECT    3    1                                                            
CONECT    4    7                                                            
CONECT    5    6    9   10                                                  
CONECT    6    7    5                                                       
CONECT    7    6    8    4                                                  
CONECT    8    7    9                                                       
CONECT    9    8    5    1                                                  
CONECT   10    5   11   12                                                  
CONECT   11   10                                                            
CONECT   12   16   13   10                                                  
CONECT   13   14   12                                                       
CONECT   14   15   13                                                       
CONECT   15   14   16                                                       
CONECT   16   15   12                                                       
MASTER        0    0    0    0    0    0    0    0   16    0   34    0
END

COMPND    HMDB0006695
HETATM    1  O1  UNL     1      -3.939   1.368  -1.857  1.00  0.00           O  
HETATM    2  C1  UNL     1      -2.688   1.061  -1.747  1.00  0.00           C  
HETATM    3  O2  UNL     1      -1.893   1.649  -2.681  1.00  0.00           O  
HETATM    4  C2  UNL     1      -2.325   0.169  -0.687  1.00  0.00           C  
HETATM    5  C3  UNL     1      -2.717   0.635   0.702  1.00  0.00           C  
HETATM    6  C4  UNL     1      -1.899  -0.326   1.581  1.00  0.00           C  
HETATM    7  O3  UNL     1      -2.748  -1.116   2.349  1.00  0.00           O  
HETATM    8  C5  UNL     1      -1.146  -1.198   0.607  1.00  0.00           C  
HETATM    9  N1  UNL     1      -0.967  -0.202  -0.486  1.00  0.00           N  
HETATM   10  C6  UNL     1       0.276   0.151  -1.028  1.00  0.00           C  
HETATM   11  O4  UNL     1       0.445   0.962  -1.969  1.00  0.00           O  
HETATM   12  C7  UNL     1       1.532  -0.460  -0.475  1.00  0.00           C  
HETATM   13  C8  UNL     1       1.907   0.183   0.839  1.00  0.00           C  
HETATM   14  C9  UNL     1       3.404  -0.085   0.941  1.00  0.00           C  
HETATM   15  C10 UNL     1       3.778  -0.480  -0.459  1.00  0.00           C  
HETATM   16  N2  UNL     1       2.675  -0.010  -1.293  1.00  0.00           N  
HETATM   17  H1  UNL     1      -1.622   2.619  -2.716  1.00  0.00           H  
HETATM   18  H2  UNL     1      -2.888  -0.812  -0.802  1.00  0.00           H  
HETATM   19  H3  UNL     1      -2.390   1.645   0.940  1.00  0.00           H  
HETATM   20  H4  UNL     1      -3.792   0.448   0.915  1.00  0.00           H  
HETATM   21  H5  UNL     1      -1.195   0.237   2.231  1.00  0.00           H  
HETATM   22  H6  UNL     1      -3.126  -1.801   1.749  1.00  0.00           H  
HETATM   23  H7  UNL     1      -0.234  -1.639   0.947  1.00  0.00           H  
HETATM   24  H8  UNL     1      -1.883  -1.910   0.176  1.00  0.00           H  
HETATM   25  H9  UNL     1       1.449  -1.538  -0.469  1.00  0.00           H  
HETATM   26  H10 UNL     1       1.719   1.266   0.744  1.00  0.00           H  
HETATM   27  H11 UNL     1       1.458  -0.238   1.728  1.00  0.00           H  
HETATM   28  H12 UNL     1       3.614  -0.897   1.639  1.00  0.00           H  
HETATM   29  H13 UNL     1       3.897   0.873   1.210  1.00  0.00           H  
HETATM   30  H14 UNL     1       4.717   0.004  -0.770  1.00  0.00           H  
HETATM   31  H15 UNL     1       3.862  -1.581  -0.570  1.00  0.00           H  
HETATM   32  H16 UNL     1       2.720   1.020  -1.288  1.00  0.00           H  
CONECT    1    2    2
CONECT    2    3    4
CONECT    3   17
CONECT    4    5    9   18
CONECT    5    6   19   20
CONECT    6    7    8   21
CONECT    7   22
CONECT    8    9   23   24
CONECT    9   10
CONECT   10   11   11   12
CONECT   12   13   16   25
CONECT   13   14   26   27
CONECT   14   15   28   29
CONECT   15   16   30   31
CONECT   16   32
END

HMDB0006695
     RDKit          3D
Prolylhydroxyproline
 32 33  0  0  0  0  0  0  0  0999 V2000
   -3.9392    1.3679   -1.8568 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6883    1.0613   -1.7472 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8930    1.6488   -2.6806 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3247    0.1695   -0.6871 C   0  0  2  0  0  0  0  0  0  0  0  0
   -2.7165    0.6352    0.7017 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8994   -0.3259    1.5807 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.7475   -1.1156    2.3489 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1457   -1.1976    0.6069 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9669   -0.2015   -0.4865 N   0  0  0  0  0  0  0  0  0  0  0  0
    0.2755    0.1510   -1.0278 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.4455    0.9618   -1.9692 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.5316   -0.4601   -0.4748 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.9072    0.1826    0.8395 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.4044   -0.0848    0.9410 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.7776   -0.4799   -0.4590 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6750   -0.0098   -1.2929 N   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6224    2.6194   -2.7159 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.8881   -0.8123   -0.8023 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3898    1.6450    0.9397 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.7920    0.4482    0.9149 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1950    0.2372    2.2308 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1259   -1.8010    1.7491 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2338   -1.6393    0.9473 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8833   -1.9098    0.1757 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4491   -1.5381   -0.4689 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7192    1.2663    0.7443 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.4576   -0.2376    1.7280 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.6142   -0.8966    1.6389 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.8968    0.8731    1.2096 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.7167    0.0038   -0.7704 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.8616   -1.5811   -0.5696 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.7196    1.0198   -1.2879 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  2  0
  2  3  1  0
  2  4  1  0
  4  5  1  0
  5  6  1  0
  6  7  1  0
  6  8  1  0
  8  9  1  0
  9 10  1  0
 10 11  2  0
 10 12  1  0
 12 13  1  0
 13 14  1  0
 14 15  1  0
 15 16  1  0
  9  4  1  0
 16 12  1  0
  3 17  1  0
  4 18  1  6
  5 19  1  0
  5 20  1  0
  6 21  1  1
  7 22  1  0
  8 23  1  0
  8 24  1  0
 12 25  1  1
 13 26  1  0
 13 27  1  0
 14 28  1  0
 14 29  1  0
 15 30  1  0
 15 31  1  0
 16 32  1  0
M  END

Synonyms

Value	Source
L-Pro-L-hyp	ChEBI
L-Prolyl-L-hydroxyproline	ChEBI
(4R)-L-Prolyl-4-hydroxy-L-proline	HMDB
4-Hydroxy-1-L-prolyl-proline	HMDB
L-4-Hydroxy-1-L-prolyl-proline	HMDB
Proline-hydroxyproline	HMDB
trans-4-Hydroxy-1-L-prolyl-proline	HMDB
Prolylhydroxyproline	ChEBI
Pro-hydroxy-Pro	HMDB
Pro-Hyp	HMDB
Proline hydroxyproline dipeptide	HMDB
Proline-hydroxyproline dipeptide	HMDB

Molecular Formula

C₁₀H₁₆N₂O₄

Average Mass

228.245

Monoisotopic Mass

228.11100701

IUPAC Name

(2S,4R)-4-hydroxy-1-[(2S)-pyrrolidine-2-carbonyl]pyrrolidine-2-carboxylic acid

Traditional Name

proline-hydroxyproline

CAS Registry Number

Not Available

SMILES

O[C@@H]1C[C@H](N(C1)C(=O)[C@@H]1CCCN1)C(O)=O

InChI Identifier

InChI=1S/C10H16N2O4/c13-6-4-8(10(15)16)12(5-6)9(14)7-2-1-3-11-7/h6-8,11,13H,1-5H2,(H,15,16)/t6-,7+,8+/m1/s1

InChI Key

ONPXCLZMBSJLSP-CSMHCCOUSA-N

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as dipeptides. These are organic compounds containing a sequence of exactly two alpha-amino acids joined by a peptide bond.

Kingdom

Organic compounds

Super Class

Organic acids and derivatives

Class

Carboxylic acids and derivatives

Sub Class

Amino acids, peptides, and analogues

Direct Parent

Dipeptides

Alternative Parents

Substituents

Alpha-dipeptide
N-acyl-alpha-amino acid
N-acyl-alpha amino acid or derivatives
Proline or derivatives
N-acyl-l-alpha-amino acid
Alpha-amino acid amide
Alpha-amino acid or derivatives
N-acylpyrrolidine
Pyrrolidine carboxylic acid
Pyrrolidine carboxylic acid or derivatives
Pyrrolidine-2-carboxamide
Tertiary carboxylic acid amide
Pyrrolidine
Secondary alcohol
Amino acid
Amino acid or derivatives
Carboxamide group
Secondary amine
Azacycle
Organoheterocyclic compound
Carboxylic acid
Secondary aliphatic amine
Monocarboxylic acid or derivatives
Hydrocarbon derivative
Organopnictogen compound
Organic oxide
Alcohol
Organonitrogen compound
Carbonyl group
Organooxygen compound
Amine
Organic nitrogen compound
Organic oxygen compound
Aliphatic heteromonocyclic compound

Molecular Framework

Aliphatic heteromonocyclic compounds

External Descriptors

dipeptide (CHEBI:74767 )

Functional Ontology

Not Available

Physical Properties

State

Expected Solid

Predicted Properties

Property	Value	Source
logP	-4	ChemAxon
pKa (Strongest Acidic)	3.54	ChemAxon
pKa (Strongest Basic)	9.82	ChemAxon
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	5	ChemAxon
Hydrogen Donor Count	3	ChemAxon
Polar Surface Area	89.87 Å²	ChemAxon
Rotatable Bond Count	2	ChemAxon
Refractivity	54.37 m³·mol⁻¹	ChemAxon
Polarizability	22.32 Å³	ChemAxon
Number of Rings	2	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	No	ChemAxon
Veber's Rule	No	ChemAxon
MDDR-like Rule	No	ChemAxon

Spectra

Not Available

Biological Properties

Cellular Locations

Not Available

Biospecimen Locations

Blood
Cerebrospinal Fluid (CSF)
Placenta
Urine

Tissue Locations

Placenta

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

Health Effects and Bioactivity

Health Outcome/Bioactivity	Metabolite Response/Effect	Evidence Type	Host and Biospecimen	Data Source	Reference
Alzheimer's disease		Association	Human Cerebrospinal Fluid (CSF)	HMDB	17031479

Microbial Sources

Superkingdom/Kingdom	Phylum	Total species	Hosts and Body Sites	Microbial Links
Bacteria/Eubacteria	Firmicutes	1	Human ; Human supragingival plaque; Human saliva; Human feces	Indirect association between microbiota composition and metabolites measured in host biospecimen

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
Human Cerebrospinal fluid (csf)	Detected and Quantified	0.086	0.016			uM	Adult (>18 years old)	Both	Alzheimer's disease	HMDB	17031479
Human Cerebrospinal fluid (csf)	Detected and Quantified	0.87	1.0			uM	Adult (>18 years old)	Both	Normal	HMDB	15145598
Human Urine	Detected and Quantified			2.4	25.6	umol/mmol creatinine	Adult (>18 years old)	Both	Normal	HMDB	22431455
Human Urine	Detected and Quantified			4.5	7.7	umol/mmol creatinine	Adult (>18 years old)	Male	Normal	HMDB	27012787
Human Urine	Detected and Quantified			4.8	9.4	umol/mmol creatinine	Adult (>18 years old)	Female	Normal	HMDB	27012787
Human Placenta	Detected but not Quantified						Not Specified	Not Specified	Normal	HMDB	34986597
Human Blood	Detected but not Quantified									HMDB

External Links

HMDB ID

HMDB0006695

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FooDB ID

FDB024028

KNApSAcK ID

Not Available

Chemspider ID

10077215

KEGG Compound ID

Not Available

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Not Available

METLIN ID

Not Available

PubChem Compound

11902892

PDB ID

Not Available

ChEBI ID

74767

Food Biomarker Ontology

Not Available

References

Synthesis Reference

Not Available

General References

Sugahara K, Kodama H: Liquid chromatography-mass spectrometry for simultaneous analyses of iminodipeptides containing an N-terminal or a C-terminal proline. J Chromatogr. 1991 Apr 19;565(1-2):408-15. doi: 10.1016/0378-4347(91)80402-x. [PubMed:1874885 ]
Codini M, Palmerini CA, Fini C, Lucarelli C, Floridi A: High-performance liquid chromatographic method for the determination of prolyl peptides in urine. J Chromatogr. 1991 Jan 4;536(1-2):337-41. doi: 10.1016/s0021-9673(01)89267-0. [PubMed:2050773 ]
Kodama H, Nakamura H, Sugahara K, Numajiri Y: Liquid chromatography-mass spectrometry for the qualitative analyses of iminodipeptides in the urine of patients with prolidase deficiency. J Chromatogr. 1990 May 18;527(2):279-88. doi: 10.1016/s0378-4347(00)82112-x. [PubMed:2387877 ]
Lowry M, Hall DE, Brosnan JT: Metabolism of glycine- and hydroxyproline-containing peptides by the isolated perfused rat kidney. Biochem J. 1985 Jul 15;229(2):545-9. doi: 10.1042/bj2290545. [PubMed:4038280 ]
Lampiaho K, Nikkari T, Pikkarainen J, Karkkainen J, Kulonen E: Unexpected occurrence of prolylhydroxyproline during the analysis of collagen-bound carbohydrates by gas-liquid chromatography. J Chromatogr. 1972 Feb 2;64(2):211-8. doi: 10.1016/s0021-9673(00)85399-6. [PubMed:5013106 ]
Hueckel HJ, Rogers QR: Prolylhydroxyproline absorption in hamsters. Can J Biochem. 1972 Jul;50(7):782-90. doi: 10.1139/o72-109. [PubMed:5050935 ]
Bienenstock HKIBRICK AC: Urinary excretion of prolylhydroxyproline in rheumatic diseases. Ann Rheum Dis. 1969 Jan;28(1):28-30. doi: 10.1136/ard.28.1.28. [PubMed:5305862 ]
Kibrick AC, Power HL, Sevendal E, Milhorat AT: Prolylhydroxyproline in urine: improved method for detecting radioactivity with a scanner on full sheets of chromatography paper. Anal Biochem. 1968 Oct 24;25(1):40-5. doi: 10.1016/0003-2697(68)90078-x. [PubMed:5704756 ]
Zhang J, Sugahara K, Yasuda K, Kodama H, Sagara Y, Kodama H: The effects of serum iminodipeptides and prednisolone on superoxide generation and tyrosyl phosphorylation of proteins in neutrophils from a patient with prolidase deficiency. Free Radic Biol Med. 1998 Mar 15;24(5):689-98. doi: 10.1016/s0891-5849(97)00361-4. [PubMed:9586797 ]
Husek P, Pohlidal A, Slabik D: Rapid screening of urinary proline-hydroxyproline dipeptide in bone turnover studies. J Chromatogr B Analyt Technol Biomed Life Sci. 2002 Feb 5;767(1):169-74. doi: 10.1016/s0378-4347(01)00558-8. [PubMed:11863289 ]
Pohlidal A, Husek P, Palicka V, Slabik D, Hill M, Matucha P: Novel and traditional biomarkers of bone turnover in postmenopausal women. Clin Chem Lab Med. 2003 Jan;41(1):74-8. doi: 10.1515/CCLM.2003.013. [PubMed:12636053 ]
KIBRICK AC, HASHIRO CQ, SCHULTZ RS, WALTERS MI, MILHORAT AT: PROLYLHYDROXYPROLINE IN URINE: ITS DETERMINATION AND OBSERVATIONS IN MUSCULAR DYSTROPHY. Clin Chim Acta. 1964 Oct;10:344-51. doi: 10.1016/0009-8981(64)90065-8. [PubMed:14219579 ]
KIBRICK AC, HASHIRO CQ, WALTERS MI, MILHORAT AT: DIKETOPIPERAZINE OF PROLYLHYDROXYPROLINE IN NORMAL HUMAN URINE. Proc Soc Exp Biol Med. 1965 Jan;118:62-4. doi: 10.3181/00379727-118-29756. [PubMed:14254586 ]
Kawaguchi T, Nanbu PN, Kurokawa M: Distribution of prolylhydroxyproline and its metabolites after oral administration in rats. Biol Pharm Bull. 2012;35(3):422-7. doi: 10.1248/bpb.35.422. [PubMed:22382331 ]
Zhang A, Sun H, Han Y, Yuan Y, Wang P, Song G, Yuan X, Zhang M, Xie N, Wang X: Exploratory urinary metabolic biomarkers and pathways using UPLC-Q-TOF-HDMS coupled with pattern recognition approach. Analyst. 2012 Sep 21;137(18):4200-8. doi: 10.1039/c2an35780a. Epub 2012 Jul 31. [PubMed:22852134 ]
Elshenawy S, Pinney SE, Stuart T, Doulias PT, Zura G, Parry S, Elovitz MA, Bennett MJ, Bansal A, Strauss JF 3rd, Ischiropoulos H, Simmons RA: The Metabolomic Signature of the Placenta in Spontaneous Preterm Birth. Int J Mol Sci. 2020 Feb 4;21(3). pii: ijms21031043. doi: 10.3390/ijms21031043. [PubMed:32033212 ]

Showing metabocard for Prolylhydroxyproline (MMDBc0000616)

MOL for #<Metabolite:0x00007f92296c46f8>

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Structure for #<Metabolite:0x00007f92296c46f8>

3D Structure for #<Metabolite:0x00007f92296c46f8>