Showing metabocard for D-threo-Isocitric acid (MMDBc0032004)

Microbial
Plant
Record Information
Version2.0
StatusDetected and Quantified
Creation Date2021-11-18 01:58:18 UTC
Update Date2025-11-05 17:13:02 UTC
Metabolite IDMMDBc0032004
Metabolite Identification
Common NameD-threo-Isocitric acid
DescriptionD-threo-Isocitric acid is a dicarboxylic acid and a key metabolite involved in various biochemical pathways. It is an isomer of isocitric acid, which plays a crucial role in the tricarboxylic acid (TCA) cycle, a central metabolic pathway that generates energy through the oxidation of carbohydrates, fats, and proteins. D-threo-Isocitric acid is specifically noted for its potential as a biomarker in metabolic studies, with evidence indicating its effective concentration (EC-10 = 0.23 μM) in vitro, suggesting its relevance in metabolic responses (PMID:31910660 ). Additionally, it has been identified alongside other metabolites as a potential urine signature that distinguishes reversible cerebral vasoconstriction syndrome patients from controls, with significant alterations observed in its levels compared to healthy individuals (PMID:31910660 ). This highlights its involvement not only in metabolic processes but also in specific clinical conditions, reflecting its importance in both biochemistry and potential diagnostic applications.
Structure
MOL3D MOLSDF3D SDFPDB3D PDBSMILESInChI

MOL for #<Metabolite:0x00007f9acf49aa18>


  Mrv1533007301515452D          

 32 31  0  0  0  0            999 V2000
   -2.8579    0.0000    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0329    0.0000    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    0.2211    0.0000    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.7605    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.0145    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.9829   -0.0000    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3184    0.4125    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.3184    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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   -2.7474    1.2375    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0329    2.4750    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6039    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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    0.9355    0.4125    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
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    1.6500    1.6500    0.0000 Se  0  0  0  0  0  0  0  0  0  0  0  0
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    2.4750    2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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    5.4434    0.4125    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
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 14  3  1  1  0  0  0
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M  STY  4   1 SUP   2 SUP   3 SUP   4 SUP
M  SAL   1  8   2   7   8   9  10  11  12  13
M  SBL   1  2   1   2
M  SMT   1 Asn
M  SAP   1  3   2   1 Al  12   3 Br  10   0 Cx
M  SCL   1 AA
M  SAL   2  6   3  14  15  16  17  18
M  SBL   2  2   2   3
M  SMT   2 Sec
M  SAP   2  3   3  12 Al  17  23 Br  16   0 Cx
M  SCL   2 AA
M  SAL   3  8   4  19  20  21  22  23  24  25
M  SBL   3  2   3   4
M  SMT   3 Leu
M  SAP   3  2  23  17 Al  24  30 Br
M  SCL   3 AA
M  SAL   4  8   5  26  27  28  29  30  31  32
M  SBL   4  2   4   5
M  SMT   4 Leu
M  SAP   4  2  30  24 Al  31   6 Br
M  SCL   4 AA
M  END
Download

3D MOL for #<Metabolite:0x00007f9acf49aa18>

HMDB0302226
     RDKit          3D
Ytterbium
 66 65  0  0  0  0  0  0  0  0999 V2000
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    2.2793   -1.5747    2.1762 Se  0  0  0  0  0  2  0  0  0  0  0  0
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    8.6849    2.5256   -3.1719 H   0  0  0  0  0  0  0  0  0  0  0  0
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  1  2  1  0
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  5  6  1  0
  6  7  1  0
  7  8  2  0
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 31 66  1  0
M  END
Download

3D SDF for #<Metabolite:0x00007f9acf49aa18>


  Mrv1533007301515452D          

 32 31  0  0  0  0            999 V2000
   -2.8579    0.0000    0.0000 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0329    0.0000    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    0.2211    0.0000    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.7605    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.0145    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.9829   -0.0000    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -1.3184    0.4125    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.3184    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0329    1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7474    1.2375    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0329    2.4750    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6039    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6039   -0.8250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    0.9355    0.4125    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.9355    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6500    1.6500    0.0000 Se  0  0  0  0  0  0  0  0  0  0  0  0
    1.6500    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.6500   -0.8250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.4750    1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.4750    2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1895    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.1895    0.4125    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.4750    0.0000    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
    3.9039    0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.9039   -0.8250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
    4.7289    1.6500    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.7289    2.4750    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.4434    1.2375    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    5.4434    0.4125    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
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    6.1579   -0.0000    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.1579   -0.8250    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  0  0  0  0
 12  3  1  0  0  0  0
 17 23  1  0  0  0  0
 24 30  1  0  0  0  0
 31  6  1  0  0  0  0
  7  2  1  1  0  0  0
  7  8  1  0  0  0  0
  8  9  1  0  0  0  0
  9 10  1  0  0  0  0
  9 11  2  0  0  0  0
  7 12  1  0  0  0  0
 12 13  2  0  0  0  0
 14  3  1  1  0  0  0
 14 15  1  0  0  0  0
 15 16  1  0  0  0  0
 14 17  1  0  0  0  0
 17 18  2  0  0  0  0
  4 19  1  0  0  0  0
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 21 22  1  0  0  0  0
 22 23  1  1  0  0  0
 22 24  1  0  0  0  0
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  5 26  1  0  0  0  0
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 29 30  1  1  0  0  0
 29 31  1  0  0  0  0
 31 32  2  0  0  0  0
M  STY  4   1 SUP   2 SUP   3 SUP   4 SUP
M  SAL   1  8   2   7   8   9  10  11  12  13
M  SBL   1  2   1   2
M  SMT   1 Asn
M  SAP   1  3   2   1 Al  12   3 Br  10   0 Cx
M  SCL   1 AA
M  SAL   2  6   3  14  15  16  17  18
M  SBL   2  2   2   3
M  SMT   2 Sec
M  SAP   2  3   3  12 Al  17  23 Br  16   0 Cx
M  SCL   2 AA
M  SAL   3  8   4  19  20  21  22  23  24  25
M  SBL   3  2   3   4
M  SMT   3 Leu
M  SAP   3  2  23  17 Al  24  30 Br
M  SCL   3 AA
M  SAL   4  8   5  26  27  28  29  30  31  32
M  SBL   4  2   4   5
M  SMT   4 Leu
M  SAP   4  2  30  24 Al  31   6 Br
M  SCL   4 AA
M  END
> <DATABASE_ID>
MMDBc0032004

> <DATABASE_NAME>
MIME

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

> <INCHI_IDENTIFIER>
InChI=1S/C19H35N5O6Se/c1-9(2)5-12(17(27)23-13(19(29)30)6-10(3)4)22-18(28)14(8-31)24-16(26)11(20)7-15(21)25/h9-14,31H,5-8,20H2,1-4H3,(H2,21,25)(H,22,28)(H,23,27)(H,24,26)(H,29,30)/t11-,12-,13-,14-/m0/s1

> <INCHI_KEY>
VOSSYQZSALYRPE-XUXIUFHCSA-N

> <FORMULA>
C19H35N5O6Se

> <MOLECULAR_WEIGHT>
508.489

> <EXACT_MASS>
509.175256

> <JCHEM_ACCEPTOR_COUNT>
8

> <JCHEM_ATOM_COUNT>
66

> <JCHEM_AVERAGE_POLARIZABILITY>
46.56188570509128

> <JCHEM_BIOAVAILABILITY>
0

> <JCHEM_DONOR_COUNT>
7

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
[(2S)-2-(asparagylamino)-3-selanylpropanoyl]leucylleucine

> <ALOGPS_LOGP>
-2.66

> <JCHEM_LOGP>
-4.731786364194899

> <ALOGPS_LOGS>
-2.68

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
0

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_PKA>
9.955233463283287

> <JCHEM_PKA_STRONGEST_ACIDIC>
3.3735254043372915

> <JCHEM_PKA_STRONGEST_BASIC>
7.045334936423273

> <JCHEM_POLAR_SURFACE_AREA>
193.70999999999998

> <JCHEM_REFRACTIVITY>
120.54389999999995

> <JCHEM_ROTATABLE_BOND_COUNT>
14

> <JCHEM_RULE_OF_FIVE>
0

> <ALOGPS_SOLUBILITY>
1.05e+00 g/l

> <JCHEM_TRADITIONAL_IUPAC>
[(2S)-2-(asparagylamino)-3-selanylpropanoyl]leucylleucine

> <JCHEM_VEBER_RULE>
0

$$$$
Download

3D-SDF for #<Metabolite:0x00007f9acf49aa18>

HMDB0302226
     RDKit          3D
Ytterbium
 66 65  0  0  0  0  0  0  0  0999 V2000
   -6.1854    1.7741    2.2171 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.8192    2.3164    1.8913 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.0302    3.7049    1.2523 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.0861    1.4975    0.9250 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6997    0.0961    1.2200 C   0  0  2  0  0  0  0  0  0  0  0  0
   -2.9989   -0.3900    0.0040 N   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6612   -0.6891    0.0397 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0380   -0.5396    1.1434 O   0  0  0  0  0  0  0  0  0  0  0  0
   -0.8339   -1.1802   -1.0928 C   0  0  2  0  0  0  0  0  0  0  0  0
   -1.4478   -2.2192   -1.9216 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8510   -3.4912   -1.2527 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.4559   -4.3683   -2.3648 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7604   -4.2809   -0.6236 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.5558   -1.3920   -0.7483 N   0  0  0  0  0  0  0  0  0  0  0  0
    1.5173   -0.3234   -0.8128 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.0895    0.7882   -1.1587 O   0  0  0  0  0  0  0  0  0  0  0  0
    2.9177   -0.6141   -0.4662 C   0  0  2  0  0  0  0  0  0  0  0  0
    3.1258   -1.7658    0.4629 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.2793   -1.5747    2.1762 Se  0  0  0  0  0  2  0  0  0  0  0  0
    3.6452    0.5383   -0.0232 N   0  0  0  0  0  0  0  0  0  0  0  0
    4.5670    1.3060   -0.7341 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.8289    1.0051   -1.9183 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.2315    2.4573   -0.1115 C   0  0  1  0  0  0  0  0  0  0  0  0
    4.9475    2.5086    1.3331 N   0  0  0  0  0  0  0  0  0  0  0  0
    6.7010    2.5890   -0.3952 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.0329    2.7837   -1.8254 C   0  0  0  0  0  0  0  0  0  0  0  0
    8.3957    2.7834   -2.2148 N   0  0  0  0  0  0  0  0  0  0  0  0
    6.1928    2.9526   -2.7404 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.7176   -0.8546    1.6186 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.2426   -1.6845    0.7779 O   0  0  0  0  0  0  0  0  0  0  0  0
   -5.1994   -0.9644    2.8978 O   0  0  0  0  0  0  0  0  0  0  0  0
   -6.9695    2.5831    2.0669 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.4221    0.9225    1.5543 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.1914    1.4540    3.2676 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.2466    2.5203    2.8380 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.3530    3.8686    0.3930 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.8067    4.5126    1.9844 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.0671    3.8091    0.8596 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1473    2.0465    0.5990 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.6669    1.4653   -0.0650 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9450    0.1458    2.0636 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.5738   -0.4804   -0.8368 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7929   -0.2449   -1.7527 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6699   -2.5295   -2.6893 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2872   -1.8427   -2.5194 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.6796   -3.3633   -0.5253 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.1172   -3.6938   -2.9739 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.5976   -4.6217   -3.0200 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0064   -5.2200   -1.9627 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1519   -5.3393   -0.5021 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1239   -4.3973   -1.2698 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5268   -3.9739    0.4179 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.9191   -2.3144   -0.4416 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4019   -0.8735   -1.4684 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.2473   -1.8450    0.6126 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.8610   -2.7462   -0.0022 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.3167   -1.0195    3.1625 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.4317    0.8320    0.9859 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.7827    3.4311   -0.5216 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.1185    1.6061    1.8067 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.9650    2.8235    1.4213 H   0  0  0  0  0  0  0  0  0  0  0  0
    7.1452    3.4420    0.1762 H   0  0  0  0  0  0  0  0  0  0  0  0
    7.2789    1.6977   -0.0486 H   0  0  0  0  0  0  0  0  0  0  0  0
    8.6849    2.5256   -3.1719 H   0  0  0  0  0  0  0  0  0  0  0  0
    9.1144    3.0467   -1.5203 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.1731   -0.9962    3.1353 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
  5  6  1  0
  6  7  1  0
  7  8  2  0
  7  9  1  0
  9 10  1  0
 10 11  1  0
 11 12  1  0
 11 13  1  0
  9 14  1  0
 14 15  1  0
 15 16  2  0
 15 17  1  0
 17 18  1  0
 18 19  1  0
 17 20  1  0
 20 21  1  0
 21 22  2  0
 21 23  1  0
 23 24  1  0
 23 25  1  0
 25 26  1  0
 26 27  1  0
 26 28  2  0
  5 29  1  0
 29 30  2  0
 29 31  1  0
  1 32  1  0
  1 33  1  0
  1 34  1  0
  2 35  1  0
  3 36  1  0
  3 37  1  0
  3 38  1  0
  4 39  1  0
  4 40  1  0
  5 41  1  1
  6 42  1  0
  9 43  1  6
 10 44  1  0
 10 45  1  0
 11 46  1  0
 12 47  1  0
 12 48  1  0
 12 49  1  0
 13 50  1  0
 13 51  1  0
 13 52  1  0
 14 53  1  0
 17 54  1  6
 18 55  1  0
 18 56  1  0
 19 57  1  0
 20 58  1  0
 23 59  1  6
 24 60  1  0
 24 61  1  0
 25 62  1  0
 25 63  1  0
 27 64  1  0
 27 65  1  0
 31 66  1  0
M  END
Download

PDB for #<Metabolite:0x00007f9acf49aa18>

HEADER    PROTEIN                                 30-JUL-15   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   30-JUL-15         0                                  
HETATM    1  H   UNK     0      -5.335   0.000   0.000  0.00  0.00           H+0
HETATM    2  N   Asn     1      -3.795   0.000   0.000  0.00  0.00           N+0
HETATM    3  N   Sec     2       0.413   0.000   0.000  0.00  0.00           N+0
HETATM    4  C   Leu     3       3.286   2.310   0.000  0.00  0.00           C+0
HETATM    5  C   Leu     4       7.494   2.310   0.000  0.00  0.00           C+0
HETATM    6  O   UNK     0      13.035  -0.000   0.000  0.00  0.00           O+0
HETATM    7  C   Asn     1      -2.461   0.770   0.000  0.00  0.00           C+0
HETATM    8  C   Asn     1      -2.461   2.310   0.000  0.00  0.00           C+0
HETATM    9  C   Asn     1      -3.795   3.080   0.000  0.00  0.00           C+0
HETATM   10  N   Asn     1      -5.128   2.310   0.000  0.00  0.00           N+0
HETATM   11  O   Asn     1      -3.795   4.620   0.000  0.00  0.00           O+0
HETATM   12  C   Asn     1      -1.127   0.000   0.000  0.00  0.00           C+0
HETATM   13  O   Asn     1      -1.127  -1.540   0.000  0.00  0.00           O+0
HETATM   14  C   Sec     2       1.746   0.770   0.000  0.00  0.00           C+0
HETATM   15  C   Sec     2       1.746   2.310   0.000  0.00  0.00           C+0
HETATM   16 Se   Sec     2       3.080   3.080   0.000  0.00  0.00          Se+0
HETATM   17  C   Sec     2       3.080   0.000   0.000  0.00  0.00           C+0
HETATM   18  O   Sec     2       3.080  -1.540   0.000  0.00  0.00           O+0
HETATM   19  C   Leu     3       4.620   3.080   0.000  0.00  0.00           C+0
HETATM   20  C   Leu     3       4.620   4.620   0.000  0.00  0.00           C+0
HETATM   21  C   Leu     3       5.954   2.310   0.000  0.00  0.00           C+0
HETATM   22  C   Leu     3       5.954   0.770   0.000  0.00  0.00           C+0
HETATM   23  N   Leu     3       4.620   0.000   0.000  0.00  0.00           N+0
HETATM   24  C   Leu     3       7.287   0.000   0.000  0.00  0.00           C+0
HETATM   25  O   Leu     3       7.287  -1.540   0.000  0.00  0.00           O+0
HETATM   26  C   Leu     4       8.827   3.080   0.000  0.00  0.00           C+0
HETATM   27  C   Leu     4       8.827   4.620   0.000  0.00  0.00           C+0
HETATM   28  C   Leu     4      10.161   2.310   0.000  0.00  0.00           C+0
HETATM   29  C   Leu     4      10.161   0.770   0.000  0.00  0.00           C+0
HETATM   30  N   Leu     4       8.827   0.000   0.000  0.00  0.00           N+0
HETATM   31  C   Leu     4      11.495  -0.000   0.000  0.00  0.00           C+0
HETATM   32  O   Leu     4      11.495  -1.540   0.000  0.00  0.00           O+0
CONECT    1    2                                                            
CONECT    2    7    1                                                       
CONECT    3   14   12                                                       
CONECT    4   19                                                            
CONECT    5   26                                                            
CONECT    6   31                                                            
CONECT    7    2    8   12                                                  
CONECT    8    7    9                                                       
CONECT    9    8   10   11                                                  
CONECT   10    9                                                            
CONECT   11    9                                                            
CONECT   12    7   13    3                                                  
CONECT   13   12                                                            
CONECT   14    3   15   17                                                  
CONECT   15   14   16                                                       
CONECT   16   15                                                            
CONECT   17   14   18   23                                                  
CONECT   18   17                                                            
CONECT   19    4   20   21                                                  
CONECT   20   19                                                            
CONECT   21   19   22                                                       
CONECT   22   21   23   24                                                  
CONECT   23   22   17                                                       
CONECT   24   22   25   30                                                  
CONECT   25   24                                                            
CONECT   26    5   27   28                                                  
CONECT   27   26                                                            
CONECT   28   26   29                                                       
CONECT   29   28   30   31                                                  
CONECT   30   29   24                                                       
CONECT   31   29   32    6                                                  
CONECT   32   31                                                            
MASTER        0    0    0    0    0    0    0    0   32    0   62    0
END
Download

3D PDB for #<Metabolite:0x00007f9acf49aa18>

COMPND    HMDB0301887
HETATM    1  C1  UNL     1      -6.726  -1.268  -0.664  1.00  0.00           C  
HETATM    2  C2  UNL     1      -5.404  -1.598  -1.428  1.00  0.00           C  
HETATM    3  C3  UNL     1      -5.751  -1.680  -2.881  1.00  0.00           C  
HETATM    4  C4  UNL     1      -4.433  -0.602  -0.998  1.00  0.00           C  
HETATM    5  C5  UNL     1      -3.035  -0.582  -1.476  1.00  0.00           C  
HETATM    6  N1  UNL     1      -2.447   0.586  -0.747  1.00  0.00           N  
HETATM    7  C6  UNL     1      -1.202   0.425  -0.131  1.00  0.00           C  
HETATM    8  O1  UNL     1      -0.614  -0.716  -0.268  1.00  0.00           O  
HETATM    9  C7  UNL     1      -0.457   1.404   0.659  1.00  0.00           C  
HETATM   10  C8  UNL     1      -1.079   2.616   1.179  1.00  0.00           C  
HETATM   11  C9  UNL     1      -2.140   2.541   2.215  1.00  0.00           C  
HETATM   12  C10 UNL     1      -3.378   1.804   1.952  1.00  0.00           C  
HETATM   13  C11 UNL     1      -2.557   4.018   2.496  1.00  0.00           C  
HETATM   14  N2  UNL     1       0.915   1.572   0.243  1.00  0.00           N  
HETATM   15  C12 UNL     1       1.886   0.620   0.587  1.00  0.00           C  
HETATM   16  O2  UNL     1       1.559  -0.425   1.246  1.00  0.00           O  
HETATM   17  C13 UNL     1       3.303   0.821   0.187  1.00  0.00           C  
HETATM   18  C14 UNL     1       3.401   1.576  -1.094  1.00  0.00           C  
HETATM   19 SE1  UNL     1       2.483   0.610  -2.506  1.00  0.00          SE  
HETATM   20  N3  UNL     1       3.948  -0.458   0.142  1.00  0.00           N  
HETATM   21  C15 UNL     1       4.792  -1.068   1.076  1.00  0.00           C  
HETATM   22  O3  UNL     1       5.062  -0.486   2.142  1.00  0.00           O  
HETATM   23  C16 UNL     1       5.393  -2.414   0.827  1.00  0.00           C  
HETATM   24  N4  UNL     1       4.987  -2.906  -0.489  1.00  0.00           N  
HETATM   25  C17 UNL     1       6.888  -2.281   0.801  1.00  0.00           C  
HETATM   26  C18 UNL     1       7.455  -1.789   2.049  1.00  0.00           C  
HETATM   27  N5  UNL     1       7.871  -2.767   3.020  1.00  0.00           N  
HETATM   28  O4  UNL     1       7.614  -0.598   2.350  1.00  0.00           O  
HETATM   29  C19 UNL     1      -2.805  -0.300  -2.900  1.00  0.00           C  
HETATM   30  O5  UNL     1      -2.311   0.856  -3.191  1.00  0.00           O  
HETATM   31  O6  UNL     1      -3.041  -1.105  -3.972  1.00  0.00           O  
HETATM   32  H1  UNL     1      -7.262  -0.470  -1.182  1.00  0.00           H  
HETATM   33  H2  UNL     1      -7.366  -2.151  -0.576  1.00  0.00           H  
HETATM   34  H3  UNL     1      -6.402  -0.901   0.328  1.00  0.00           H  
HETATM   35  H4  UNL     1      -5.141  -2.612  -1.076  1.00  0.00           H  
HETATM   36  H5  UNL     1      -5.586  -0.695  -3.359  1.00  0.00           H  
HETATM   37  H6  UNL     1      -5.297  -2.463  -3.459  1.00  0.00           H  
HETATM   38  H7  UNL     1      -6.877  -1.831  -3.007  1.00  0.00           H  
HETATM   39  H8  UNL     1      -4.370  -0.570   0.135  1.00  0.00           H  
HETATM   40  H9  UNL     1      -4.832   0.453  -1.209  1.00  0.00           H  
HETATM   41  H10 UNL     1      -2.405  -1.448  -1.130  1.00  0.00           H  
HETATM   42  H11 UNL     1      -2.959   1.469  -0.755  1.00  0.00           H  
HETATM   43  H12 UNL     1      -0.280   0.759   1.691  1.00  0.00           H  
HETATM   44  H13 UNL     1      -1.458   3.278   0.336  1.00  0.00           H  
HETATM   45  H14 UNL     1      -0.278   3.301   1.642  1.00  0.00           H  
HETATM   46  H15 UNL     1      -1.682   2.165   3.186  1.00  0.00           H  
HETATM   47  H16 UNL     1      -3.254   0.711   1.909  1.00  0.00           H  
HETATM   48  H17 UNL     1      -4.032   1.936   2.896  1.00  0.00           H  
HETATM   49  H18 UNL     1      -3.953   2.247   1.120  1.00  0.00           H  
HETATM   50  H19 UNL     1      -1.720   4.463   3.065  1.00  0.00           H  
HETATM   51  H20 UNL     1      -3.433   4.008   3.172  1.00  0.00           H  
HETATM   52  H21 UNL     1      -2.779   4.548   1.578  1.00  0.00           H  
HETATM   53  H22 UNL     1       1.159   2.417  -0.330  1.00  0.00           H  
HETATM   54  H23 UNL     1       3.807   1.454   1.010  1.00  0.00           H  
HETATM   55  H24 UNL     1       2.980   2.583  -0.975  1.00  0.00           H  
HETATM   56  H25 UNL     1       4.504   1.657  -1.368  1.00  0.00           H  
HETATM   57  H26 UNL     1       3.428   0.509  -3.725  1.00  0.00           H  
HETATM   58  H27 UNL     1       3.749  -1.023  -0.752  1.00  0.00           H  
HETATM   59  H28 UNL     1       5.045  -3.098   1.601  1.00  0.00           H  
HETATM   60  H29 UNL     1       3.953  -3.044  -0.555  1.00  0.00           H  
HETATM   61  H30 UNL     1       5.364  -2.309  -1.258  1.00  0.00           H  
HETATM   62  H31 UNL     1       7.181  -1.551  -0.006  1.00  0.00           H  
HETATM   63  H32 UNL     1       7.362  -3.251   0.463  1.00  0.00           H  
HETATM   64  H33 UNL     1       8.860  -3.098   2.908  1.00  0.00           H  
HETATM   65  H34 UNL     1       7.273  -3.128   3.770  1.00  0.00           H  
HETATM   66  H35 UNL     1      -3.476  -0.724  -4.813  1.00  0.00           H  
CONECT    1    2   32   33   34
CONECT    2    3    4   35
CONECT    3   36   37   38
CONECT    4    5   39   40
CONECT    5    6   29   41
CONECT    6    7   42
CONECT    7    8    8    9
CONECT    9   10   14   43
CONECT   10   11   44   45
CONECT   11   12   13   46
CONECT   12   47   48   49
CONECT   13   50   51   52
CONECT   14   15   53
CONECT   15   16   16   17
CONECT   17   18   20   54
CONECT   18   19   55   56
CONECT   19   57
CONECT   20   21   58
CONECT   21   22   22   23
CONECT   23   24   25   59
CONECT   24   60   61
CONECT   25   26   62   63
CONECT   26   27   28   28
CONECT   27   64   65
CONECT   29   30   30   31
CONECT   31   66
END
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SMILES for #<Metabolite:0x00007f9acf49aa18>

[H]N[C@@H](CC(N)=O)C(=O)N[C@@H](C[SeH])C(=O)N[C@@H](CC(C)C)C(=O)N[C@@H](CC(C)C)C(O)=O
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INCHI for #<Metabolite:0x00007f9acf49aa18>

InChI=1S/C19H35N5O6Se/c1-9(2)5-12(17(27)23-13(19(29)30)6-10(3)4)22-18(28)14(8-31)24-16(26)11(20)7-15(21)25/h9-14,31H,5-8,20H2,1-4H3,(H2,21,25)(H,22,28)(H,23,27)(H,24,26)(H,29,30)/t11-,12-,13-,14-/m0/s1
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Synonyms
ValueSource
(2S)-2-{[(2S)-2-{[(2R)-2-{[(2S)-2-amino-1-hydroxy-3-(C-hydroxycarbonimidoyl)propylidene]amino}-1-hydroxy-3-selanylpropylidene]amino}-1-hydroxy-4-methylpentylidene]amino}-4-methylpentanoateGenerator
DeoxycholylleucineHMDB
Leu-DeoxychoHMDB
Leu-DCAHMDB
Leucodeoxycholic acidHMDB
LeucodeoxycholateHMDB
Molecular FormulaC19H35N5O6Se
Average Mass508.489
Monoisotopic Mass509.175256
IUPAC Name[(2S)-2-(asparagylamino)-3-selanylpropanoyl]leucylleucine
Traditional Name[(2S)-2-(asparagylamino)-3-selanylpropanoyl]leucylleucine
CAS Registry NumberNot Available
SMILES
[H]N[C@@H](CC(N)=O)C(=O)N[C@@H](C[SeH])C(=O)N[C@@H](CC(C)C)C(=O)N[C@@H](CC(C)C)C(O)=O
InChI Identifier
InChI=1S/C19H35N5O6Se/c1-9(2)5-12(17(27)23-13(19(29)30)6-10(3)4)22-18(28)14(8-31)24-16(26)11(20)7-15(21)25/h9-14,31H,5-8,20H2,1-4H3,(H2,21,25)(H,22,28)(H,23,27)(H,24,26)(H,29,30)/t11-,12-,13-,14-/m0/s1
InChI KeyVOSSYQZSALYRPE-XUXIUFHCSA-N