Showing metabocard for L-Allothreonine (MMDBc0000601)

Record Information
Version1.0
StatusDetected and Quantified
Creation Date2020-12-10 18:50:51 UTC
Update Date2024-04-30 19:33:14 UTC
Metabolite IDMMDBc0000601
Metabolite Identification
Common NameL-Allothreonine
DescriptionL-allothreonine is the L-enantiomer of allothreonine. It has a role as an Escherichia coli metabolite and a Saccharomyces cerevisiae metabolite. It is an enantiomer of a D-allothreonine. It is a tautomer of a L-allothreonine zwitterion. Allothreonine is the substrate of the enzyme Serine hydroxymethyltransferase1 (SHMT, EC 2.1.2.1), a human cytoplasmic mRNA binding protein. SHMT uses pyridoxal 5'-phosphate (PLP) and tetrahydropteroylglutamate (H4PteGlu) as coenzymes and catalyzes the reversible interconversion of serine and glycine. In addition to these physiological reactions, SHMT also catalyzes, in the absence of H4PteGlu, the retroaldol cleavage of several 3-hydroxyamino acids, such as allothreonine. Allothreonine is a plant metabolite that appears in the human diet in variable concentrations depending on: plant species, physiological changes during plant growth, senescence, and reactions to environmental stress or to changes due to plant transformation (PMID:10858298 , 10952545 ).
Structure
MOL3D MOLSDF3D SDFPDB3D PDBSMILESInChI

MOL for #<Metabolite:0x00007fdb50420350>


  Mrv1652308122017452D          

  8  7  0  0  1  0            999 V2000
   28.6880  -12.1837    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   25.8301  -12.1837    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   26.5446  -10.9461    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   27.2591  -13.0087    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   27.9736  -11.7712    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   27.2591  -12.1837    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   27.9736  -10.9461    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   26.5446  -11.7712    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  5  1  1  6  0  0  0
  2  8  1  0  0  0  0
  3  8  2  0  0  0  0
  6  4  1  6  0  0  0
  5  6  1  0  0  0  0
  5  7  1  0  0  0  0
  6  8  1  0  0  0  0
M  END
Download

3D MOL for #<Metabolite:0x00007fdb50420350>

HMDB0004041
     RDKit          3D
L-Allothreonine
 17 16  0  0  0  0  0  0  0  0999 V2000
    1.4434    0.7857   -0.4586 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8046    0.0968    0.7312 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.6399   -0.8850    1.2589 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4754   -0.5725    0.2596 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.1793   -1.5699   -0.7662 N   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4281    0.4344   -0.2493 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9132    0.4259   -1.4101 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8129    1.4544    0.6063 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.7931    1.7859   -0.1330 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.7002    0.9243   -1.2460 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.3090    0.2069   -0.8520 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.5143    0.8223    1.5145 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.1100   -1.6075    1.7041 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8653   -1.1381    1.1306 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0926   -1.0959   -1.6819 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0166   -2.1897   -0.8190 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5309    2.1220    0.4110 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  2  4  1  0
  4  5  1  0
  4  6  1  0
  6  7  2  0
  6  8  1  0
  1  9  1  0
  1 10  1  0
  1 11  1  0
  2 12  1  1
  3 13  1  0
  4 14  1  1
  5 15  1  0
  5 16  1  0
  8 17  1  0
M  END
Download

3D SDF for #<Metabolite:0x00007fdb50420350>


  Mrv1652308122017452D          

  8  7  0  0  1  0            999 V2000
   28.6880  -12.1837    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   25.8301  -12.1837    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   26.5446  -10.9461    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   27.2591  -13.0087    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   27.9736  -11.7712    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   27.2591  -12.1837    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   27.9736  -10.9461    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   26.5446  -11.7712    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  5  1  1  6  0  0  0
  2  8  1  0  0  0  0
  3  8  2  0  0  0  0
  6  4  1  6  0  0  0
  5  6  1  0  0  0  0
  5  7  1  0  0  0  0
  6  8  1  0  0  0  0
M  END
> <DATABASE_ID>
MMDBc0000601

> <DATABASE_NAME>
MIME

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

> <INCHI_IDENTIFIER>
InChI=1S/C4H9NO3/c1-2(6)3(5)4(7)8/h2-3,6H,5H2,1H3,(H,7,8)/t2-,3-/m0/s1

> <INCHI_KEY>
AYFVYJQAPQTCCC-HRFVKAFMSA-N

> <FORMULA>
C4H9NO3

> <MOLECULAR_WEIGHT>
119.1192

> <EXACT_MASS>
119.058243159

> <JCHEM_ACCEPTOR_COUNT>
4

> <JCHEM_ATOM_COUNT>
17

> <JCHEM_AVERAGE_POLARIZABILITY>
11.080603006345182

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
3

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
(2S,3S)-2-amino-3-hydroxybutanoic acid

> <ALOGPS_LOGP>
-3.01

> <JCHEM_LOGP>
-3.4709635238772347

> <ALOGPS_LOGS>
0.60

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
0

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
14.953369305664726

> <JCHEM_PKA_STRONGEST_ACIDIC>
2.207432028688761

> <JCHEM_PKA_STRONGEST_BASIC>
9.002504827404067

> <JCHEM_POLAR_SURFACE_AREA>
83.55

> <JCHEM_REFRACTIVITY>
26.4598

> <JCHEM_ROTATABLE_BOND_COUNT>
2

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
4.77e+02 g/l

> <JCHEM_TRADITIONAL_IUPAC>
L-allothreonine

> <JCHEM_VEBER_RULE>
0

$$$$
Download

3D-SDF for #<Metabolite:0x00007fdb50420350>

HMDB0004041
     RDKit          3D
L-Allothreonine
 17 16  0  0  0  0  0  0  0  0999 V2000
    1.4434    0.7857   -0.4586 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8046    0.0968    0.7312 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.6399   -0.8850    1.2589 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.4754   -0.5725    0.2596 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.1793   -1.5699   -0.7662 N   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4281    0.4344   -0.2493 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9132    0.4259   -1.4101 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8129    1.4544    0.6063 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.7931    1.7859   -0.1330 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.7002    0.9243   -1.2460 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.3090    0.2069   -0.8520 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.5143    0.8223    1.5145 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.1100   -1.6075    1.7041 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8653   -1.1381    1.1306 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0926   -1.0959   -1.6819 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0166   -2.1897   -0.8190 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5309    2.1220    0.4110 H   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0
  2  3  1  0
  2  4  1  0
  4  5  1  0
  4  6  1  0
  6  7  2  0
  6  8  1  0
  1  9  1  0
  1 10  1  0
  1 11  1  0
  2 12  1  1
  3 13  1  0
  4 14  1  1
  5 15  1  0
  5 16  1  0
  8 17  1  0
M  END
Download

PDB for #<Metabolite:0x00007fdb50420350>

HEADER    PROTEIN                                 12-AUG-20   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   12-AUG-20         0                                  
HETATM    1  O   UNK     0      53.551 -22.743   0.000  0.00  0.00           O+0
HETATM    2  O   UNK     0      48.216 -22.743   0.000  0.00  0.00           O+0
HETATM    3  O   UNK     0      49.550 -20.433   0.000  0.00  0.00           O+0
HETATM    4  N   UNK     0      50.884 -24.283   0.000  0.00  0.00           N+0
HETATM    5  C   UNK     0      52.217 -21.973   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      50.884 -22.743   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0      52.217 -20.433   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      49.550 -21.973   0.000  0.00  0.00           C+0
CONECT    1    5                                                            
CONECT    2    8                                                            
CONECT    3    8                                                            
CONECT    4    6                                                            
CONECT    5    1    6    7                                                  
CONECT    6    4    5    8                                                  
CONECT    7    5                                                            
CONECT    8    2    3    6                                                  
MASTER        0    0    0    0    0    0    0    0    8    0   14    0
END
Download

3D PDB for #<Metabolite:0x00007fdb50420350>

COMPND    HMDB0004041
HETATM    1  C1  UNL     1       1.443   0.786  -0.459  1.00  0.00           C  
HETATM    2  C2  UNL     1       0.805   0.097   0.731  1.00  0.00           C  
HETATM    3  O1  UNL     1       1.640  -0.885   1.259  1.00  0.00           O  
HETATM    4  C3  UNL     1      -0.475  -0.572   0.260  1.00  0.00           C  
HETATM    5  N1  UNL     1      -0.179  -1.570  -0.766  1.00  0.00           N  
HETATM    6  C4  UNL     1      -1.428   0.434  -0.249  1.00  0.00           C  
HETATM    7  O2  UNL     1      -1.913   0.426  -1.410  1.00  0.00           O  
HETATM    8  O3  UNL     1      -1.813   1.454   0.606  1.00  0.00           O  
HETATM    9  H1  UNL     1       1.793   1.786  -0.133  1.00  0.00           H  
HETATM   10  H2  UNL     1       0.700   0.924  -1.246  1.00  0.00           H  
HETATM   11  H3  UNL     1       2.309   0.207  -0.852  1.00  0.00           H  
HETATM   12  H4  UNL     1       0.514   0.822   1.515  1.00  0.00           H  
HETATM   13  H5  UNL     1       1.110  -1.608   1.704  1.00  0.00           H  
HETATM   14  H6  UNL     1      -0.865  -1.138   1.131  1.00  0.00           H  
HETATM   15  H7  UNL     1      -0.093  -1.096  -1.682  1.00  0.00           H  
HETATM   16  H8  UNL     1      -1.017  -2.190  -0.819  1.00  0.00           H  
HETATM   17  H9  UNL     1      -2.531   2.122   0.411  1.00  0.00           H  
CONECT    1    2    9   10   11
CONECT    2    3    4   12
CONECT    3   13
CONECT    4    5    6   14
CONECT    5   15   16
CONECT    6    7    7    8
CONECT    8   17
END
Download

SMILES for #<Metabolite:0x00007fdb50420350>

C[C@H](O)[C@H](N)C(O)=O
Download

INCHI for #<Metabolite:0x00007fdb50420350>

InChI=1S/C4H9NO3/c1-2(6)3(5)4(7)8/h2-3,6H,5H2,1H3,(H,7,8)/t2-,3-/m0/s1
Download
Synonyms
ValueSource
(2S,3S)-2-Amino-3-hydroxybutanoic acidChEBI
Allo-L-threonineChEBI
ALLO-threonineChEBI
L-Allo-threonineChEBI
(2S,3S)-2-Amino-3-hydroxybutanoateGenerator
D-AllothreonineHMDB
Molecular FormulaC4H9NO3
Average Mass119.1192
Monoisotopic Mass119.058243159
IUPAC Name(2S,3S)-2-amino-3-hydroxybutanoic acid
Traditional NameL-allothreonine
CAS Registry NumberNot Available
SMILES
C[C@H](O)[C@H](N)C(O)=O
InChI Identifier
InChI=1S/C4H9NO3/c1-2(6)3(5)4(7)8/h2-3,6H,5H2,1H3,(H,7,8)/t2-,3-/m0/s1
InChI KeyAYFVYJQAPQTCCC-HRFVKAFMSA-N