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Showing metabocard for Phytanoyl-CoA (HMDB0001359)

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IdentificationTaxonomyOntologyPhysical propertiesSpectraBiological propertiesConcentrationsLinksReferencesenzymes (3) Show 3 proteinsXML
enzymes (3) Show 3 proteins
Record Information
Version5.0
StatusExpected but not Quantified
Creation Date2005-11-16 15:48:42 UTC
Update Date2022-03-07 02:49:09 UTC
HMDB IDHMDB0001359
Secondary Accession Numbers
  • HMDB0006504
  • HMDB01359
  • HMDB06504
Metabolite Identification
Common NamePhytanoyl-CoA
DescriptionPhytanoyl CoA is a coenzyme A derivative of phytanic acid. Phytanic acid is present in human diet or in animal tissues where it may be derived from chlorophyll in plant extracts. Specifically it is an epimeric metabolite of the isoprenoid side chain of chlorophyll. Owing to the presence of its epimeric beta-methyl group, phytanic acid cannot be metabolized by beta-oxidation. Instead, it is metabolized in peroxisomes via alpha-oxidation to give pristanic acid, which is then oxidized by beta-oxidation. PhyH (phytanoyl-CoA 2-hydroxylase) catalyses hydroxylation of phytanoyl-CoA. Mutations of PhyH can lead to phytanic acid accumulation. High levels of phytanic acid are found in patients suffering from Refsum's syndrome. This inherited neurological disorder is characterized by an accumulation of phytanic acid in blood and tissues. Clinically it is characterized by adult onset retinitis pigmentosa, anosmia, sensory neuropathy, and phytanic acidaemia. This disorder has been found to be related to deficiency in the α-oxidation pathway in the liver. (PMID: 17956235 ). Phytanoyl CoA and other branched-chain fatty acid CoA products are potent inducers of the peroxisome proliferator-activated receptor PPARalpha, a nuclear receptor that enhances transcription of peroxisomal enzymes mediating beta-oxidation of these potentially toxic fatty acids (PMID: 16768463 ). Pyruvate dehydrogenase and 2-oxoglutarate dehydrogenase are strongly inhibited by phytanoyl-CoA. Decreased activity of these important mitochondrial metabolism complexes might therefore contribute to neurological symptoms upon accumulation of phytanic acid in Refsum disease (PMID: 16737698 ).
Structure
Data?1582752195
MOL3D MOLSDF3D SDFPDB3D PDBSMILESInChI

MOL for HMDB0001359 (Phytanoyl-CoA)


  Mrv0541 02231219052D          

 69 71  0  0  1  0            999 V2000
   -1.9882    3.4291    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3287    2.0004    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   -3.4291    3.4291    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9882    4.2620    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0156    2.4928    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5780    1.2221    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   -3.4291    4.2620    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.1527    3.0096    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7116    4.6817    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6846    2.0064    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   -3.4231    1.2221    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.0977    0.5533    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.1527    4.6755    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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   -3.8426    0.6323    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
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   -4.1587    5.5024    0.0000 N   0  0  0  0  0  0  0  0  0  0  0  0
   -5.5814    1.7207    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
   -4.7242    0.6385    0.0000 P   0  0  0  0  0  0  0  0  0  0  0  0
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   -4.6573    1.4227    0.0000 O   0  0  0  0  0  0  0  0  0  0  0  0
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    1.1004   -1.7085    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
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 10 11  1  0  0  0  0
 14 17  1  0  0  0  0
M  END
Download

3D MOL for HMDB0001359 (Phytanoyl-CoA)

HMDB0001359
     RDKit          3D
Phytanoyl-CoA
143145  0  0  0  0  0  0  0  0999 V2000
  -18.1620   -0.1829   -0.7572 C   0  0  0  0  0  0  0  0  0  0  0  0
  -16.7419   -0.8350   -0.5584 C   0  0  0  0  0  0  0  0  0  0  0  0
  -16.0806   -0.5714   -1.8687 C   0  0  0  0  0  0  0  0  0  0  0  0
  -16.1398   -0.2965    0.6689 C   0  0  0  0  0  0  0  0  0  0  0  0
  -14.8405   -0.7754    1.1120 C   0  0  0  0  0  0  0  0  0  0  0  0
  -13.5563   -0.6687    0.4624 C   0  0  0  0  0  0  0  0  0  0  0  0
  -12.8815    0.6127    0.1830 C   0  0  1  0  0  0  0  0  0  0  0  0
  -13.6919    1.5467   -0.7687 C   0  0  0  0  0  0  0  0  0  0  0  0
  -12.5031    1.3880    1.3869 C   0  0  0  0  0  0  0  0  0  0  0  0
  -11.6368    0.8331    2.3976 C   0  0  0  0  0  0  0  0  0  0  0  0
  -10.2682    0.3765    2.2886 C   0  0  0  0  0  0  0  0  0  0  0  0
   -9.7429   -0.7787    1.5948 C   0  0  1  0  0  0  0  0  0  0  0  0
   -9.8522   -1.0350    0.1546 C   0  0  0  0  0  0  0  0  0  0  0  0
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   -7.3584   -0.0202    1.9925 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.8524    0.5777    0.7815 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.9547   -0.1655   -0.1597 C   0  0  2  0  0  0  0  0  0  0  0  0
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   -4.5990   -0.3903    0.5207 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6462   -1.0727   -0.3509 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.8401   -1.1727   -1.5551 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1588   -1.7832    0.3618 S   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0652   -1.5771    2.1130 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8554   -0.2105    2.6585 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6725    0.4764    2.3295 N   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2795    0.8292    1.0312 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9080    0.5949   -0.0227 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.0326    1.5661    0.8590 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3748    1.6617   -0.5946 C   0  0  0  0  0  0  0  0  0  0  0  0
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    3.8424    1.9361   -0.2560 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.8557    0.9009    0.4609 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.0920    2.7056   -0.5186 C   0  0  0  0  0  0  0  0  0  0  0  0
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    6.6096    1.0633    0.4965 C   0  0  0  0  0  0  0  0  0  0  0  0
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    9.7297   -2.1774   -2.8909 P   0  0  0  0  0  5  0  0  0  0  0  0
   10.2742   -3.3934   -3.6322 O   0  0  0  0  0  0  0  0  0  0  0  0
    8.7163   -2.6856   -1.6168 O   0  0  0  0  0  0  0  0  0  0  0  0
   10.9938   -1.3122   -2.2340 O   0  0  0  0  0  0  0  0  0  0  0  0
   10.7188    0.0261   -2.0609 C   0  0  0  0  0  0  0  0  0  0  0  0
   11.9189    0.7479   -1.4490 C   0  0  1  0  0  0  0  0  0  0  0  0
   12.1556    0.1527   -0.2372 O   0  0  0  0  0  0  0  0  0  0  0  0
   13.4813   -0.1721   -0.1142 C   0  0  1  0  0  0  0  0  0  0  0  0
   13.6809   -1.2815    0.7691 N   0  0  0  0  0  0  0  0  0  0  0  0
   13.5505   -2.5850    0.4653 C   0  0  0  0  0  0  0  0  0  0  0  0
   13.8209   -3.3387    1.5560 N   0  0  0  0  0  0  0  0  0  0  0  0
   14.1255   -2.5351    2.5655 C   0  0  0  0  0  0  0  0  0  0  0  0
   14.4742   -2.7721    3.8763 C   0  0  0  0  0  0  0  0  0  0  0  0
   14.5818   -4.0613    4.4415 N   0  0  0  0  0  0  0  0  0  0  0  0
   14.7233   -1.7035    4.6479 N   0  0  0  0  0  0  0  0  0  0  0  0
   14.6380   -0.4509    4.1678 C   0  0  0  0  0  0  0  0  0  0  0  0
   14.2991   -0.2148    2.8925 N   0  0  0  0  0  0  0  0  0  0  0  0
   14.0358   -1.2365    2.0634 C   0  0  0  0  0  0  0  0  0  0  0  0
   13.8937   -0.4873   -1.5387 C   0  0  2  0  0  0  0  0  0  0  0  0
   15.2626   -0.3892   -1.7191 O   0  0  0  0  0  0  0  0  0  0  0  0
   13.1575    0.6436   -2.2748 C   0  0  2  0  0  0  0  0  0  0  0  0
   13.9385    1.7838   -2.0457 O   0  0  0  0  0  0  0  0  0  0  0  0
   14.4931    2.5120   -3.4418 P   0  0  0  0  0  5  0  0  0  0  0  0
   16.0240    2.5650   -3.4735 O   0  0  0  0  0  0  0  0  0  0  0  0
   13.9305    1.7027   -4.7977 O   0  0  0  0  0  0  0  0  0  0  0  0
   13.9808    4.1387   -3.4330 O   0  0  0  0  0  0  0  0  0  0  0  0
  -18.5663   -0.7121   -1.6398 H   0  0  0  0  0  0  0  0  0  0  0  0
  -18.7576   -0.4000    0.1277 H   0  0  0  0  0  0  0  0  0  0  0  0
  -18.0295    0.8650   -1.0218 H   0  0  0  0  0  0  0  0  0  0  0  0
  -16.9918   -1.9234   -0.4796 H   0  0  0  0  0  0  0  0  0  0  0  0
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  -16.8765   -0.6387    1.5232 H   0  0  0  0  0  0  0  0  0  0  0  0
  -14.9999   -1.9340    1.2637 H   0  0  0  0  0  0  0  0  0  0  0  0
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M  END
Download

3D SDF for HMDB0001359 (Phytanoyl-CoA)


  Mrv0541 02231219052D          

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M  END
> <DATABASE_ID>
HMDB0001359

> <DATABASE_NAME>
hmdb

> <SMILES>
CC(C)CCC[C@@H](C)CCC[C@@H](C)CCC[C@H](C)CC(=O)SCCNC(=O)CCNC(=O)C(O)C(C)(C)COP(O)(=O)OP(O)(=O)OC[C@H]1O[C@H]([C@H](O)[C@@H]1OP(O)(O)=O)N1C=NC2=C1N=CN=C2N

> <INCHI_IDENTIFIER>
InChI=1S/C41H74N7O17P3S/c1-26(2)11-8-12-27(3)13-9-14-28(4)15-10-16-29(5)21-32(50)69-20-19-43-31(49)17-18-44-39(53)36(52)41(6,7)23-62-68(59,60)65-67(57,58)61-22-30-35(64-66(54,55)56)34(51)40(63-30)48-25-47-33-37(42)45-24-46-38(33)48/h24-30,34-36,40,51-52H,8-23H2,1-7H3,(H,43,49)(H,44,53)(H,57,58)(H,59,60)(H2,42,45,46)(H2,54,55,56)/t27-,28-,29+,30-,34-,35-,36?,40-/m1/s1

> <INCHI_KEY>
NRJQGHHZMSOUEN-IYJVDCLDSA-N

> <FORMULA>
C41H74N7O17P3S

> <MOLECULAR_WEIGHT>
1062.049

> <EXACT_MASS>
1061.407474203

> <JCHEM_ACCEPTOR_COUNT>
17

> <JCHEM_AVERAGE_POLARIZABILITY>
106.07372511105953

> <JCHEM_BIOAVAILABILITY>
0

> <JCHEM_DONOR_COUNT>
9

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
0

> <JCHEM_IUPAC>
{[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-4-hydroxy-2-({[hydroxy({hydroxy[3-hydroxy-2,2-dimethyl-3-({2-[(2-{[(3S,7R,11R)-3,7,11,15-tetramethylhexadecanoyl]sulfanyl}ethyl)carbamoyl]ethyl}carbamoyl)propoxy]phosphoryl}oxy)phosphoryl]oxy}methyl)oxolan-3-yl]oxy}phosphonic acid

> <ALOGPS_LOGP>
3.00

> <JCHEM_LOGP>
0.6527940073669828

> <ALOGPS_LOGS>
-3.14

> <JCHEM_MDDR_LIKE_RULE>
1

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
-4

> <JCHEM_PKA>
1.8334045176178444

> <JCHEM_PKA_STRONGEST_ACIDIC>
0.8252479627216065

> <JCHEM_PKA_STRONGEST_BASIC>
4.946047024039826

> <JCHEM_POLAR_SURFACE_AREA>
363.6299999999999

> <JCHEM_REFRACTIVITY>
254.8423000000001

> <JCHEM_ROTATABLE_BOND_COUNT>
34

> <JCHEM_RULE_OF_FIVE>
0

> <ALOGPS_SOLUBILITY>
7.67e-01 g/l

> <JCHEM_TRADITIONAL_IUPAC>
[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-4-hydroxy-2-[({hydroxy[hydroxy(3-hydroxy-2,2-dimethyl-3-({2-[(2-{[(3S,7R,11R)-3,7,11,15-tetramethylhexadecanoyl]sulfanyl}ethyl)carbamoyl]ethyl}carbamoyl)propoxy)phosphoryl]oxyphosphoryl}oxy)methyl]oxolan-3-yl]oxyphosphonic acid

> <JCHEM_VEBER_RULE>
0

$$$$
Download

3D-SDF for HMDB0001359 (Phytanoyl-CoA)

HMDB0001359
     RDKit          3D
Phytanoyl-CoA
143145  0  0  0  0  0  0  0  0999 V2000
  -18.1620   -0.1829   -0.7572 C   0  0  0  0  0  0  0  0  0  0  0  0
  -16.7419   -0.8350   -0.5584 C   0  0  0  0  0  0  0  0  0  0  0  0
  -16.0806   -0.5714   -1.8687 C   0  0  0  0  0  0  0  0  0  0  0  0
  -16.1398   -0.2965    0.6689 C   0  0  0  0  0  0  0  0  0  0  0  0
  -14.8405   -0.7754    1.1120 C   0  0  0  0  0  0  0  0  0  0  0  0
  -13.5563   -0.6687    0.4624 C   0  0  0  0  0  0  0  0  0  0  0  0
  -12.8815    0.6127    0.1830 C   0  0  1  0  0  0  0  0  0  0  0  0
  -13.6919    1.5467   -0.7687 C   0  0  0  0  0  0  0  0  0  0  0  0
  -12.5031    1.3880    1.3869 C   0  0  0  0  0  0  0  0  0  0  0  0
  -11.6368    0.8331    2.3976 C   0  0  0  0  0  0  0  0  0  0  0  0
  -10.2682    0.3765    2.2886 C   0  0  0  0  0  0  0  0  0  0  0  0
   -9.7429   -0.7787    1.5948 C   0  0  1  0  0  0  0  0  0  0  0  0
   -9.8522   -1.0350    0.1546 C   0  0  0  0  0  0  0  0  0  0  0  0
   -8.3125   -1.1048    2.1238 C   0  0  0  0  0  0  0  0  0  0  0  0
   -7.3584   -0.0202    1.9925 C   0  0  0  0  0  0  0  0  0  0  0  0
   -6.8524    0.5777    0.7815 C   0  0  0  0  0  0  0  0  0  0  0  0
   -5.9547   -0.1655   -0.1597 C   0  0  2  0  0  0  0  0  0  0  0  0
   -6.5230   -1.3898   -0.7770 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.5990   -0.3903    0.5207 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.6462   -1.0727   -0.3509 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.8401   -1.1727   -1.5551 O   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1588   -1.7832    0.3618 S   0  0  0  0  0  0  0  0  0  0  0  0
   -2.0652   -1.5771    2.1130 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.8554   -0.2105    2.6585 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6725    0.4764    2.3295 N   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2795    0.8292    1.0312 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.9080    0.5949   -0.0227 O   0  0  0  0  0  0  0  0  0  0  0  0
    1.0326    1.5661    0.8590 C   0  0  0  0  0  0  0  0  0  0  0  0
    1.3748    1.6617   -0.5946 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.6205    2.3754   -0.8184 N   0  0  0  0  0  0  0  0  0  0  0  0
    3.8424    1.9361   -0.2560 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.8557    0.9009    0.4609 O   0  0  0  0  0  0  0  0  0  0  0  0
    5.0920    2.7056   -0.5186 C   0  0  0  0  0  0  0  0  0  0  0  0
    4.8908    3.6808   -1.4767 O   0  0  0  0  0  0  0  0  0  0  0  0
    6.2836    1.8337   -0.7831 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.4579    2.7776   -1.0370 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.6096    1.0633    0.4965 C   0  0  0  0  0  0  0  0  0  0  0  0
    6.1090    0.8864   -1.9417 C   0  0  0  0  0  0  0  0  0  0  0  0
    7.2827    0.1424   -2.0728 O   0  0  0  0  0  0  0  0  0  0  0  0
    7.2560   -0.9701   -3.3126 P   0  0  0  0  0  5  0  0  0  0  0  0
    6.4045   -0.4394   -4.4392 O   0  0  0  0  0  0  0  0  0  0  0  0
    6.5917   -2.4519   -2.8307 O   0  0  0  0  0  0  0  0  0  0  0  0
    8.8227   -1.2262   -3.9380 O   0  0  0  0  0  0  0  0  0  0  0  0
    9.7297   -2.1774   -2.8909 P   0  0  0  0  0  5  0  0  0  0  0  0
   10.2742   -3.3934   -3.6322 O   0  0  0  0  0  0  0  0  0  0  0  0
    8.7163   -2.6856   -1.6168 O   0  0  0  0  0  0  0  0  0  0  0  0
   10.9938   -1.3122   -2.2340 O   0  0  0  0  0  0  0  0  0  0  0  0
   10.7188    0.0261   -2.0609 C   0  0  0  0  0  0  0  0  0  0  0  0
   11.9189    0.7479   -1.4490 C   0  0  1  0  0  0  0  0  0  0  0  0
   12.1556    0.1527   -0.2372 O   0  0  0  0  0  0  0  0  0  0  0  0
   13.4813   -0.1721   -0.1142 C   0  0  1  0  0  0  0  0  0  0  0  0
   13.6809   -1.2815    0.7691 N   0  0  0  0  0  0  0  0  0  0  0  0
   13.5505   -2.5850    0.4653 C   0  0  0  0  0  0  0  0  0  0  0  0
   13.8209   -3.3387    1.5560 N   0  0  0  0  0  0  0  0  0  0  0  0
   14.1255   -2.5351    2.5655 C   0  0  0  0  0  0  0  0  0  0  0  0
   14.4742   -2.7721    3.8763 C   0  0  0  0  0  0  0  0  0  0  0  0
   14.5818   -4.0613    4.4415 N   0  0  0  0  0  0  0  0  0  0  0  0
   14.7233   -1.7035    4.6479 N   0  0  0  0  0  0  0  0  0  0  0  0
   14.6380   -0.4509    4.1678 C   0  0  0  0  0  0  0  0  0  0  0  0
   14.2991   -0.2148    2.8925 N   0  0  0  0  0  0  0  0  0  0  0  0
   14.0358   -1.2365    2.0634 C   0  0  0  0  0  0  0  0  0  0  0  0
   13.8937   -0.4873   -1.5387 C   0  0  2  0  0  0  0  0  0  0  0  0
   15.2626   -0.3892   -1.7191 O   0  0  0  0  0  0  0  0  0  0  0  0
   13.1575    0.6436   -2.2748 C   0  0  2  0  0  0  0  0  0  0  0  0
   13.9385    1.7838   -2.0457 O   0  0  0  0  0  0  0  0  0  0  0  0
   14.4931    2.5120   -3.4418 P   0  0  0  0  0  5  0  0  0  0  0  0
   16.0240    2.5650   -3.4735 O   0  0  0  0  0  0  0  0  0  0  0  0
   13.9305    1.7027   -4.7977 O   0  0  0  0  0  0  0  0  0  0  0  0
   13.9808    4.1387   -3.4330 O   0  0  0  0  0  0  0  0  0  0  0  0
  -18.5663   -0.7121   -1.6398 H   0  0  0  0  0  0  0  0  0  0  0  0
  -18.7576   -0.4000    0.1277 H   0  0  0  0  0  0  0  0  0  0  0  0
  -18.0295    0.8650   -1.0218 H   0  0  0  0  0  0  0  0  0  0  0  0
  -16.9918   -1.9234   -0.4796 H   0  0  0  0  0  0  0  0  0  0  0  0
  -16.0577    0.5336   -2.0143 H   0  0  0  0  0  0  0  0  0  0  0  0
  -16.7392   -0.9404   -2.7274 H   0  0  0  0  0  0  0  0  0  0  0  0
  -15.0962   -0.9867   -1.9988 H   0  0  0  0  0  0  0  0  0  0  0  0
  -16.2753    0.8220    0.7002 H   0  0  0  0  0  0  0  0  0  0  0  0
  -16.8765   -0.6387    1.5232 H   0  0  0  0  0  0  0  0  0  0  0  0
  -14.9999   -1.9340    1.2637 H   0  0  0  0  0  0  0  0  0  0  0  0
  -14.7198   -0.5240    2.2525 H   0  0  0  0  0  0  0  0  0  0  0  0
  -12.8228   -1.2454    1.1927 H   0  0  0  0  0  0  0  0  0  0  0  0
  -13.4996   -1.3121   -0.4715 H   0  0  0  0  0  0  0  0  0  0  0  0
  -11.9685    0.4523   -0.4182 H   0  0  0  0  0  0  0  0  0  0  0  0
  -13.0090    2.4466   -0.9718 H   0  0  0  0  0  0  0  0  0  0  0  0
  -14.5920    1.8940   -0.3100 H   0  0  0  0  0  0  0  0  0  0  0  0
  -13.7792    1.0752   -1.7579 H   0  0  0  0  0  0  0  0  0  0  0  0
  -13.4397    1.8818    1.8428 H   0  0  0  0  0  0  0  0  0  0  0  0
  -11.9911    2.3341    0.9719 H   0  0  0  0  0  0  0  0  0  0  0  0
  -11.7151    1.5987    3.3022 H   0  0  0  0  0  0  0  0  0  0  0  0
  -12.2009   -0.0437    2.9579 H   0  0  0  0  0  0  0  0  0  0  0  0
   -9.6849    1.2956    1.8206 H   0  0  0  0  0  0  0  0  0  0  0  0
   -9.8636    0.3912    3.3898 H   0  0  0  0  0  0  0  0  0  0  0  0
  -10.3141   -1.6925    2.0703 H   0  0  0  0  0  0  0  0  0  0  0  0
  -10.8671   -1.4800   -0.1362 H   0  0  0  0  0  0  0  0  0  0  0  0
   -9.1935   -1.9416   -0.1257 H   0  0  0  0  0  0  0  0  0  0  0  0
   -9.6807   -0.2086   -0.5348 H   0  0  0  0  0  0  0  0  0  0  0  0
   -8.4975   -1.2577    3.2397 H   0  0  0  0  0  0  0  0  0  0  0  0
   -8.0576   -2.0718    1.7380 H   0  0  0  0  0  0  0  0  0  0  0  0
   -7.6788    0.8479    2.6783 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.4191   -0.3642    2.5926 H   0  0  0  0  0  0  0  0  0  0  0  0
   -7.6466    1.0479    0.1267 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.2557    1.5081    1.0878 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.7294    0.5575   -0.9974 H   0  0  0  0  0  0  0  0  0  0  0  0
   -7.4476   -1.0979   -1.3821 H   0  0  0  0  0  0  0  0  0  0  0  0
   -5.8852   -1.8394   -1.5997 H   0  0  0  0  0  0  0  0  0  0  0  0
   -6.7013   -2.2290   -0.0997 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.2170    0.6546    0.6777 H   0  0  0  0  0  0  0  0  0  0  0  0
   -4.7092   -0.9339    1.4633 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1729   -2.1907    2.4768 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9543   -2.0363    2.6373 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.7337    0.4559    2.3937 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.9187   -0.2510    3.8038 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.0149    0.7552    3.1211 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7798    1.0250    1.4706 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.9493    2.5730    1.3343 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.5105    0.6690   -1.0609 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.5662    2.1895   -1.1205 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.6281    3.2471   -1.4114 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.3123    3.2909    0.4402 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.4906    3.3295   -2.3049 H   0  0  0  0  0  0  0  0  0  0  0  0
    8.3606    2.1629   -1.0693 H   0  0  0  0  0  0  0  0  0  0  0  0
    7.4697    3.5979   -0.3091 H   0  0  0  0  0  0  0  0  0  0  0  0
    7.3100    3.1663   -2.0823 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.0067    1.4602    1.3511 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.3212    0.0155    0.3166 H   0  0  0  0  0  0  0  0  0  0  0  0
    7.6620    1.1747    0.7577 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.2138    0.2601   -1.7811 H   0  0  0  0  0  0  0  0  0  0  0  0
    5.9232    1.4997   -2.8483 H   0  0  0  0  0  0  0  0  0  0  0  0
    6.2478   -2.4156   -1.8998 H   0  0  0  0  0  0  0  0  0  0  0  0
    8.8420   -2.0690   -0.8485 H   0  0  0  0  0  0  0  0  0  0  0  0
   10.3786    0.5050   -2.9887 H   0  0  0  0  0  0  0  0  0  0  0  0
    9.8990    0.1622   -1.2945 H   0  0  0  0  0  0  0  0  0  0  0  0
   11.5772    1.8046   -1.3084 H   0  0  0  0  0  0  0  0  0  0  0  0
   14.0510    0.7335    0.1900 H   0  0  0  0  0  0  0  0  0  0  0  0
   13.2748   -2.9863   -0.4887 H   0  0  0  0  0  0  0  0  0  0  0  0
   15.5083   -4.5648    4.5277 H   0  0  0  0  0  0  0  0  0  0  0  0
   13.7561   -4.5569    4.7912 H   0  0  0  0  0  0  0  0  0  0  0  0
   14.8496    0.3725    4.8339 H   0  0  0  0  0  0  0  0  0  0  0  0
   13.4596   -1.4399   -1.8824 H   0  0  0  0  0  0  0  0  0  0  0  0
   15.5418   -1.1561   -2.2887 H   0  0  0  0  0  0  0  0  0  0  0  0
   13.0200    0.4127   -3.3287 H   0  0  0  0  0  0  0  0  0  0  0  0
   14.6046    1.6826   -5.5382 H   0  0  0  0  0  0  0  0  0  0  0  0
   14.2536    4.5174   -2.5505 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  1  0
  7  9  1  0
  9 10  1  0
 10 11  1  0
 11 12  1  0
 12 13  1  0
 12 14  1  0
 14 15  1  0
 15 16  1  0
 16 17  1  0
 17 18  1  0
 17 19  1  0
 19 20  1  0
 20 21  2  0
 20 22  1  0
 22 23  1  0
 23 24  1  0
 24 25  1  0
 25 26  1  0
 26 27  2  0
 26 28  1  0
 28 29  1  0
 29 30  1  0
 30 31  1  0
 31 32  2  0
 31 33  1  0
 33 34  1  0
 33 35  1  0
 35 36  1  0
 35 37  1  0
 35 38  1  0
 38 39  1  0
 39 40  1  0
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 40 42  1  0
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 48 49  1  0
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 51 52  1  0
 52 53  1  0
 53 54  2  0
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 59 60  1  0
 60 61  2  0
 51 62  1  0
 62 63  1  0
 62 64  1  0
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 66 69  1  0
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 61 52  1  0
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  1 71  1  0
  1 72  1  0
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  6 81  1  0
  6 82  1  0
  7 83  1  6
  8 84  1  0
  8 85  1  0
  8 86  1  0
  9 87  1  0
  9 88  1  0
 10 89  1  0
 10 90  1  0
 11 91  1  0
 11 92  1  0
 12 93  1  1
 13 94  1  0
 13 95  1  0
 13 96  1  0
 14 97  1  0
 14 98  1  0
 15 99  1  0
 15100  1  0
 16101  1  0
 16102  1  0
 17103  1  6
 18104  1  0
 18105  1  0
 18106  1  0
 19107  1  0
 19108  1  0
 23109  1  0
 23110  1  0
 24111  1  0
 24112  1  0
 25113  1  0
 28114  1  0
 28115  1  0
 29116  1  0
 29117  1  0
 30118  1  0
 33119  1  0
 34120  1  0
 36121  1  0
 36122  1  0
 36123  1  0
 37124  1  0
 37125  1  0
 37126  1  0
 38127  1  0
 38128  1  0
 42129  1  0
 46130  1  0
 48131  1  0
 48132  1  0
 49133  1  1
 51134  1  1
 53135  1  0
 57136  1  0
 57137  1  0
 59138  1  0
 62139  1  6
 63140  1  0
 64141  1  6
 68142  1  0
 69143  1  0
M  END
Download

PDB for HMDB0001359 (Phytanoyl-CoA)

HEADER    PROTEIN                                 23-FEB-12   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   23-FEB-12         0                                  
HETATM    1  N   UNK     0      -3.711   6.401   0.000  0.00  0.00           N+0
HETATM    2  C   UNK     0      -4.347   3.734   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      -6.401   6.401   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      -3.711   7.956   0.000  0.00  0.00           C+0
HETATM    5  O   UNK     0      -5.629   4.653   0.000  0.00  0.00           O+0
HETATM    6  C   UNK     0      -4.812   2.281   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0      -6.401   7.956   0.000  0.00  0.00           C+0
HETATM    8  N   UNK     0      -7.752   5.618   0.000  0.00  0.00           N+0
HETATM    9  N   UNK     0      -5.062   8.739   0.000  0.00  0.00           N+0
HETATM   10  C   UNK     0      -6.878   3.745   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0      -6.390   2.281   0.000  0.00  0.00           C+0
HETATM   12  O   UNK     0      -3.916   1.033   0.000  0.00  0.00           O+0
HETATM   13  C   UNK     0      -7.752   8.728   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0      -9.091   6.401   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0      -8.319   4.199   0.000  0.00  0.00           C+0
HETATM   16  O   UNK     0      -7.173   1.180   0.000  0.00  0.00           O+0
HETATM   17  N   UNK     0      -9.091   7.956   0.000  0.00  0.00           N+0
HETATM   18  N   UNK     0      -7.763  10.271   0.000  0.00  0.00           N+0
HETATM   19  O   UNK     0     -10.419   3.212   0.000  0.00  0.00           O+0
HETATM   20  P   UNK     0      -8.819   1.192   0.000  0.00  0.00           P+0
HETATM   21  P   UNK     0     -12.881   3.178   0.000  0.00  0.00           P+0
HETATM   22  O   UNK     0      -8.694   2.656   0.000  0.00  0.00           O+0
HETATM   23  O   UNK     0     -10.317   1.146   0.000  0.00  0.00           O+0
HETATM   24  O   UNK     0      -8.830  -0.363   0.000  0.00  0.00           O+0
HETATM   25  O   UNK     0     -12.881  -0.079   0.000  0.00  0.00           O+0
HETATM   26  O   UNK     0     -12.870   4.733   0.000  0.00  0.00           O+0
HETATM   27  O   UNK     0     -14.425   3.212   0.000  0.00  0.00           O+0
HETATM   28  P   UNK     0     -12.870  -3.212   0.000  0.00  0.00           P+0
HETATM   29  O   UNK     0     -11.270  -3.189   0.000  0.00  0.00           O+0
HETATM   30  O   UNK     0     -12.904  -5.039   0.000  0.00  0.00           O+0
HETATM   31  O   UNK     0     -14.414  -3.189   0.000  0.00  0.00           O+0
HETATM   32  C   UNK     0      -9.942  -2.418   0.000  0.00  0.00           C+0
HETATM   33  C   UNK     0      -8.603  -3.189   0.000  0.00  0.00           C+0
HETATM   34  C   UNK     0      -7.275  -2.418   0.000  0.00  0.00           C+0
HETATM   35  C   UNK     0      -8.591  -4.619   0.000  0.00  0.00           C+0
HETATM   36  C   UNK     0      -8.637  -1.600   0.000  0.00  0.00           C+0
HETATM   37  C   UNK     0      -5.947  -3.189   0.000  0.00  0.00           C+0
HETATM   38  O   UNK     0      -7.275  -0.874   0.000  0.00  0.00           O+0
HETATM   39  N   UNK     0      -4.608  -2.418   0.000  0.00  0.00           N+0
HETATM   40  O   UNK     0      -5.947  -4.721   0.000  0.00  0.00           O+0
HETATM   41  C   UNK     0      -3.280  -3.189   0.000  0.00  0.00           C+0
HETATM   42  C   UNK     0      -1.941  -2.418   0.000  0.00  0.00           C+0
HETATM   43  C   UNK     0      -0.613  -3.189   0.000  0.00  0.00           C+0
HETATM   44  N   UNK     0       0.726  -2.418   0.000  0.00  0.00           N+0
HETATM   45  O   UNK     0      -0.613  -4.721   0.000  0.00  0.00           O+0
HETATM   46  C   UNK     0       2.054  -3.189   0.000  0.00  0.00           C+0
HETATM   47  C   UNK     0       3.393  -2.418   0.000  0.00  0.00           C+0
HETATM   48  S   UNK     0       4.653  -3.269   0.000  0.00  0.00           S+0
HETATM   49  C   UNK     0       6.015  -2.565   0.000  0.00  0.00           C+0
HETATM   50  C   UNK     0       7.309  -3.393   0.000  0.00  0.00           C+0
HETATM   51  O   UNK     0       5.993  -0.908   0.000  0.00  0.00           O+0
HETATM   52  C   UNK     0       8.648  -2.633   0.000  0.00  0.00           C+0
HETATM   53  C   UNK     0       9.976  -3.405   0.000  0.00  0.00           C+0
HETATM   54  C   UNK     0       8.648  -1.101   0.000  0.00  0.00           C+0
HETATM   55  C   UNK     0      11.315  -2.633   0.000  0.00  0.00           C+0
HETATM   56  C   UNK     0      12.643  -3.405   0.000  0.00  0.00           C+0
HETATM   57  C   UNK     0      13.982  -2.633   0.000  0.00  0.00           C+0
HETATM   58  C   UNK     0      15.310  -3.405   0.000  0.00  0.00           C+0
HETATM   59  C   UNK     0      13.982  -1.101   0.000  0.00  0.00           C+0
HETATM   60  C   UNK     0      16.649  -2.633   0.000  0.00  0.00           C+0
HETATM   61  C   UNK     0      17.977  -3.405   0.000  0.00  0.00           C+0
HETATM   62  C   UNK     0      19.305  -2.633   0.000  0.00  0.00           C+0
HETATM   63  C   UNK     0      20.644  -3.405   0.000  0.00  0.00           C+0
HETATM   64  C   UNK     0      19.305  -1.101   0.000  0.00  0.00           C+0
HETATM   65  C   UNK     0      21.973  -2.633   0.000  0.00  0.00           C+0
HETATM   66  C   UNK     0      23.312  -3.405   0.000  0.00  0.00           C+0
HETATM   67  C   UNK     0      24.639  -2.633   0.000  0.00  0.00           C+0
HETATM   68  C   UNK     0      25.979  -3.405   0.000  0.00  0.00           C+0
HETATM   69  C   UNK     0      24.639  -1.101   0.000  0.00  0.00           C+0
CONECT    1    2    3    4                                                  
CONECT    2    1    5    6                                                  
CONECT    3    1    7    8                                                  
CONECT    4    1    9                                                       
CONECT    5    2   10                                                       
CONECT    6    2   11   12                                                  
CONECT    7    3   13    9                                                  
CONECT    8    3   14                                                       
CONECT    9    4    7                                                       
CONECT   10    5   15   11                                                  
CONECT   11    6   16   10                                                  
CONECT   12    6                                                            
CONECT   13    7   17   18                                                  
CONECT   14    8   17                                                       
CONECT   15   10   19                                                       
CONECT   16   11   20                                                       
CONECT   17   13   14                                                       
CONECT   18   13                                                            
CONECT   19   15   21                                                       
CONECT   20   16   22   23   24                                             
CONECT   21   19   25   26   27                                             
CONECT   22   20                                                            
CONECT   23   20                                                            
CONECT   24   20                                                            
CONECT   25   21   28                                                       
CONECT   26   21                                                            
CONECT   27   21                                                            
CONECT   28   25   29   30   31                                             
CONECT   29   28   32                                                       
CONECT   30   28                                                            
CONECT   31   28                                                            
CONECT   32   29   33                                                       
CONECT   33   32   34   35   36                                             
CONECT   34   33   37   38                                                  
CONECT   35   33                                                            
CONECT   36   33                                                            
CONECT   37   34   39   40                                                  
CONECT   38   34                                                            
CONECT   39   37   41                                                       
CONECT   40   37                                                            
CONECT   41   39   42                                                       
CONECT   42   41   43                                                       
CONECT   43   42   44   45                                                  
CONECT   44   43   46                                                       
CONECT   45   43                                                            
CONECT   46   44   47                                                       
CONECT   47   46   48                                                       
CONECT   48   47   49                                                       
CONECT   49   48   50   51                                                  
CONECT   50   49   52                                                       
CONECT   51   49                                                            
CONECT   52   50   53   54                                                  
CONECT   53   52   55                                                       
CONECT   54   52                                                            
CONECT   55   53   56                                                       
CONECT   56   55   57                                                       
CONECT   57   56   58   59                                                  
CONECT   58   57   60                                                       
CONECT   59   57                                                            
CONECT   60   58   61                                                       
CONECT   61   60   62                                                       
CONECT   62   61   63   64                                                  
CONECT   63   62   65                                                       
CONECT   64   62                                                            
CONECT   65   63   66                                                       
CONECT   66   65   67                                                       
CONECT   67   66   68   69                                                  
CONECT   68   67                                                            
CONECT   69   67                                                            
MASTER        0    0    0    0    0    0    0    0   69    0  142    0
END
Download

3D PDB for HMDB0001359 (Phytanoyl-CoA)

COMPND    HMDB0001359
HETATM    1  C1  UNL     1     -18.162  -0.183  -0.757  1.00  0.00           C  
HETATM    2  C2  UNL     1     -16.742  -0.835  -0.558  1.00  0.00           C  
HETATM    3  C3  UNL     1     -16.081  -0.571  -1.869  1.00  0.00           C  
HETATM    4  C4  UNL     1     -16.140  -0.297   0.669  1.00  0.00           C  
HETATM    5  C5  UNL     1     -14.840  -0.775   1.112  1.00  0.00           C  
HETATM    6  C6  UNL     1     -13.556  -0.669   0.462  1.00  0.00           C  
HETATM    7  C7  UNL     1     -12.881   0.613   0.183  1.00  0.00           C  
HETATM    8  C8  UNL     1     -13.692   1.547  -0.769  1.00  0.00           C  
HETATM    9  C9  UNL     1     -12.503   1.388   1.387  1.00  0.00           C  
HETATM   10  C10 UNL     1     -11.637   0.833   2.398  1.00  0.00           C  
HETATM   11  C11 UNL     1     -10.268   0.376   2.289  1.00  0.00           C  
HETATM   12  C12 UNL     1      -9.743  -0.779   1.595  1.00  0.00           C  
HETATM   13  C13 UNL     1      -9.852  -1.035   0.155  1.00  0.00           C  
HETATM   14  C14 UNL     1      -8.313  -1.105   2.124  1.00  0.00           C  
HETATM   15  C15 UNL     1      -7.358  -0.020   1.992  1.00  0.00           C  
HETATM   16  C16 UNL     1      -6.852   0.578   0.782  1.00  0.00           C  
HETATM   17  C17 UNL     1      -5.955  -0.165  -0.160  1.00  0.00           C  
HETATM   18  C18 UNL     1      -6.523  -1.390  -0.777  1.00  0.00           C  
HETATM   19  C19 UNL     1      -4.599  -0.390   0.521  1.00  0.00           C  
HETATM   20  C20 UNL     1      -3.646  -1.073  -0.351  1.00  0.00           C  
HETATM   21  O1  UNL     1      -3.840  -1.173  -1.555  1.00  0.00           O  
HETATM   22  S1  UNL     1      -2.159  -1.783   0.362  1.00  0.00           S  
HETATM   23  C21 UNL     1      -2.065  -1.577   2.113  1.00  0.00           C  
HETATM   24  C22 UNL     1      -1.855  -0.211   2.659  1.00  0.00           C  
HETATM   25  N1  UNL     1      -0.672   0.476   2.330  1.00  0.00           N  
HETATM   26  C23 UNL     1      -0.280   0.829   1.031  1.00  0.00           C  
HETATM   27  O2  UNL     1      -0.908   0.595  -0.023  1.00  0.00           O  
HETATM   28  C24 UNL     1       1.033   1.566   0.859  1.00  0.00           C  
HETATM   29  C25 UNL     1       1.375   1.662  -0.595  1.00  0.00           C  
HETATM   30  N2  UNL     1       2.620   2.375  -0.818  1.00  0.00           N  
HETATM   31  C26 UNL     1       3.842   1.936  -0.256  1.00  0.00           C  
HETATM   32  O3  UNL     1       3.856   0.901   0.461  1.00  0.00           O  
HETATM   33  C27 UNL     1       5.092   2.706  -0.519  1.00  0.00           C  
HETATM   34  O4  UNL     1       4.891   3.681  -1.477  1.00  0.00           O  
HETATM   35  C28 UNL     1       6.284   1.834  -0.783  1.00  0.00           C  
HETATM   36  C29 UNL     1       7.458   2.778  -1.037  1.00  0.00           C  
HETATM   37  C30 UNL     1       6.610   1.063   0.497  1.00  0.00           C  
HETATM   38  C31 UNL     1       6.109   0.886  -1.942  1.00  0.00           C  
HETATM   39  O5  UNL     1       7.283   0.142  -2.073  1.00  0.00           O  
HETATM   40  P1  UNL     1       7.256  -0.970  -3.313  1.00  0.00           P  
HETATM   41  O6  UNL     1       6.404  -0.439  -4.439  1.00  0.00           O  
HETATM   42  O7  UNL     1       6.592  -2.452  -2.831  1.00  0.00           O  
HETATM   43  O8  UNL     1       8.823  -1.226  -3.938  1.00  0.00           O  
HETATM   44  P2  UNL     1       9.730  -2.177  -2.891  1.00  0.00           P  
HETATM   45  O9  UNL     1      10.274  -3.393  -3.632  1.00  0.00           O  
HETATM   46  O10 UNL     1       8.716  -2.686  -1.617  1.00  0.00           O  
HETATM   47  O11 UNL     1      10.994  -1.312  -2.234  1.00  0.00           O  
HETATM   48  C32 UNL     1      10.719   0.026  -2.061  1.00  0.00           C  
HETATM   49  C33 UNL     1      11.919   0.748  -1.449  1.00  0.00           C  
HETATM   50  O12 UNL     1      12.156   0.153  -0.237  1.00  0.00           O  
HETATM   51  C34 UNL     1      13.481  -0.172  -0.114  1.00  0.00           C  
HETATM   52  N3  UNL     1      13.681  -1.282   0.769  1.00  0.00           N  
HETATM   53  C35 UNL     1      13.551  -2.585   0.465  1.00  0.00           C  
HETATM   54  N4  UNL     1      13.821  -3.339   1.556  1.00  0.00           N  
HETATM   55  C36 UNL     1      14.126  -2.535   2.565  1.00  0.00           C  
HETATM   56  C37 UNL     1      14.474  -2.772   3.876  1.00  0.00           C  
HETATM   57  N5  UNL     1      14.582  -4.061   4.442  1.00  0.00           N  
HETATM   58  N6  UNL     1      14.723  -1.703   4.648  1.00  0.00           N  
HETATM   59  C38 UNL     1      14.638  -0.451   4.168  1.00  0.00           C  
HETATM   60  N7  UNL     1      14.299  -0.215   2.893  1.00  0.00           N  
HETATM   61  C39 UNL     1      14.036  -1.237   2.063  1.00  0.00           C  
HETATM   62  C40 UNL     1      13.894  -0.487  -1.539  1.00  0.00           C  
HETATM   63  O13 UNL     1      15.263  -0.389  -1.719  1.00  0.00           O  
HETATM   64  C41 UNL     1      13.157   0.644  -2.275  1.00  0.00           C  
HETATM   65  O14 UNL     1      13.938   1.784  -2.046  1.00  0.00           O  
HETATM   66  P3  UNL     1      14.493   2.512  -3.442  1.00  0.00           P  
HETATM   67  O15 UNL     1      16.024   2.565  -3.474  1.00  0.00           O  
HETATM   68  O16 UNL     1      13.930   1.703  -4.798  1.00  0.00           O  
HETATM   69  O17 UNL     1      13.981   4.139  -3.433  1.00  0.00           O  
HETATM   70  H1  UNL     1     -18.566  -0.712  -1.640  1.00  0.00           H  
HETATM   71  H2  UNL     1     -18.758  -0.400   0.128  1.00  0.00           H  
HETATM   72  H3  UNL     1     -18.029   0.865  -1.022  1.00  0.00           H  
HETATM   73  H4  UNL     1     -16.992  -1.923  -0.480  1.00  0.00           H  
HETATM   74  H5  UNL     1     -16.058   0.534  -2.014  1.00  0.00           H  
HETATM   75  H6  UNL     1     -16.739  -0.940  -2.727  1.00  0.00           H  
HETATM   76  H7  UNL     1     -15.096  -0.987  -1.999  1.00  0.00           H  
HETATM   77  H8  UNL     1     -16.275   0.822   0.700  1.00  0.00           H  
HETATM   78  H9  UNL     1     -16.877  -0.639   1.523  1.00  0.00           H  
HETATM   79  H10 UNL     1     -15.000  -1.934   1.264  1.00  0.00           H  
HETATM   80  H11 UNL     1     -14.720  -0.524   2.252  1.00  0.00           H  
HETATM   81  H12 UNL     1     -12.823  -1.245   1.193  1.00  0.00           H  
HETATM   82  H13 UNL     1     -13.500  -1.312  -0.471  1.00  0.00           H  
HETATM   83  H14 UNL     1     -11.969   0.452  -0.418  1.00  0.00           H  
HETATM   84  H15 UNL     1     -13.009   2.447  -0.972  1.00  0.00           H  
HETATM   85  H16 UNL     1     -14.592   1.894  -0.310  1.00  0.00           H  
HETATM   86  H17 UNL     1     -13.779   1.075  -1.758  1.00  0.00           H  
HETATM   87  H18 UNL     1     -13.440   1.882   1.843  1.00  0.00           H  
HETATM   88  H19 UNL     1     -11.991   2.334   0.972  1.00  0.00           H  
HETATM   89  H20 UNL     1     -11.715   1.599   3.302  1.00  0.00           H  
HETATM   90  H21 UNL     1     -12.201  -0.044   2.958  1.00  0.00           H  
HETATM   91  H22 UNL     1      -9.685   1.296   1.821  1.00  0.00           H  
HETATM   92  H23 UNL     1      -9.864   0.391   3.390  1.00  0.00           H  
HETATM   93  H24 UNL     1     -10.314  -1.692   2.070  1.00  0.00           H  
HETATM   94  H25 UNL     1     -10.867  -1.480  -0.136  1.00  0.00           H  
HETATM   95  H26 UNL     1      -9.193  -1.942  -0.126  1.00  0.00           H  
HETATM   96  H27 UNL     1      -9.681  -0.209  -0.535  1.00  0.00           H  
HETATM   97  H28 UNL     1      -8.498  -1.258   3.240  1.00  0.00           H  
HETATM   98  H29 UNL     1      -8.058  -2.072   1.738  1.00  0.00           H  
HETATM   99  H30 UNL     1      -7.679   0.848   2.678  1.00  0.00           H  
HETATM  100  H31 UNL     1      -6.419  -0.364   2.593  1.00  0.00           H  
HETATM  101  H32 UNL     1      -7.647   1.048   0.127  1.00  0.00           H  
HETATM  102  H33 UNL     1      -6.256   1.508   1.088  1.00  0.00           H  
HETATM  103  H34 UNL     1      -5.729   0.557  -0.997  1.00  0.00           H  
HETATM  104  H35 UNL     1      -7.448  -1.098  -1.382  1.00  0.00           H  
HETATM  105  H36 UNL     1      -5.885  -1.839  -1.600  1.00  0.00           H  
HETATM  106  H37 UNL     1      -6.701  -2.229  -0.100  1.00  0.00           H  
HETATM  107  H38 UNL     1      -4.217   0.655   0.678  1.00  0.00           H  
HETATM  108  H39 UNL     1      -4.709  -0.934   1.463  1.00  0.00           H  
HETATM  109  H40 UNL     1      -1.173  -2.191   2.477  1.00  0.00           H  
HETATM  110  H41 UNL     1      -2.954  -2.036   2.637  1.00  0.00           H  
HETATM  111  H42 UNL     1      -2.734   0.456   2.394  1.00  0.00           H  
HETATM  112  H43 UNL     1      -1.919  -0.251   3.804  1.00  0.00           H  
HETATM  113  H44 UNL     1      -0.015   0.755   3.121  1.00  0.00           H  
HETATM  114  H45 UNL     1       1.780   1.025   1.471  1.00  0.00           H  
HETATM  115  H46 UNL     1       0.949   2.573   1.334  1.00  0.00           H  
HETATM  116  H47 UNL     1       1.511   0.669  -1.061  1.00  0.00           H  
HETATM  117  H48 UNL     1       0.566   2.190  -1.120  1.00  0.00           H  
HETATM  118  H49 UNL     1       2.628   3.247  -1.411  1.00  0.00           H  
HETATM  119  H50 UNL     1       5.312   3.291   0.440  1.00  0.00           H  
HETATM  120  H51 UNL     1       4.491   3.330  -2.305  1.00  0.00           H  
HETATM  121  H52 UNL     1       8.361   2.163  -1.069  1.00  0.00           H  
HETATM  122  H53 UNL     1       7.470   3.598  -0.309  1.00  0.00           H  
HETATM  123  H54 UNL     1       7.310   3.166  -2.082  1.00  0.00           H  
HETATM  124  H55 UNL     1       6.007   1.460   1.351  1.00  0.00           H  
HETATM  125  H56 UNL     1       6.321   0.015   0.317  1.00  0.00           H  
HETATM  126  H57 UNL     1       7.662   1.175   0.758  1.00  0.00           H  
HETATM  127  H58 UNL     1       5.214   0.260  -1.781  1.00  0.00           H  
HETATM  128  H59 UNL     1       5.923   1.500  -2.848  1.00  0.00           H  
HETATM  129  H60 UNL     1       6.248  -2.416  -1.900  1.00  0.00           H  
HETATM  130  H61 UNL     1       8.842  -2.069  -0.849  1.00  0.00           H  
HETATM  131  H62 UNL     1      10.379   0.505  -2.989  1.00  0.00           H  
HETATM  132  H63 UNL     1       9.899   0.162  -1.294  1.00  0.00           H  
HETATM  133  H64 UNL     1      11.577   1.805  -1.308  1.00  0.00           H  
HETATM  134  H65 UNL     1      14.051   0.733   0.190  1.00  0.00           H  
HETATM  135  H66 UNL     1      13.275  -2.986  -0.489  1.00  0.00           H  
HETATM  136  H67 UNL     1      15.508  -4.565   4.528  1.00  0.00           H  
HETATM  137  H68 UNL     1      13.756  -4.557   4.791  1.00  0.00           H  
HETATM  138  H69 UNL     1      14.850   0.372   4.834  1.00  0.00           H  
HETATM  139  H70 UNL     1      13.460  -1.440  -1.882  1.00  0.00           H  
HETATM  140  H71 UNL     1      15.542  -1.156  -2.289  1.00  0.00           H  
HETATM  141  H72 UNL     1      13.020   0.413  -3.329  1.00  0.00           H  
HETATM  142  H73 UNL     1      14.605   1.683  -5.538  1.00  0.00           H  
HETATM  143  H74 UNL     1      14.254   4.517  -2.550  1.00  0.00           H  
CONECT    1    2   70   71   72
CONECT    2    3    4   73
CONECT    3   74   75   76
CONECT    4    5   77   78
CONECT    5    6   79   80
CONECT    6    7   81   82
CONECT    7    8    9   83
CONECT    8   84   85   86
CONECT    9   10   87   88
CONECT   10   11   89   90
CONECT   11   12   91   92
CONECT   12   13   14   93
CONECT   13   94   95   96
CONECT   14   15   97   98
CONECT   15   16   99  100
CONECT   16   17  101  102
CONECT   17   18   19  103
CONECT   18  104  105  106
CONECT   19   20  107  108
CONECT   20   21   21   22
CONECT   22   23
CONECT   23   24  109  110
CONECT   24   25  111  112
CONECT   25   26  113
CONECT   26   27   27   28
CONECT   28   29  114  115
CONECT   29   30  116  117
CONECT   30   31  118
CONECT   31   32   32   33
CONECT   33   34   35  119
CONECT   34  120
CONECT   35   36   37   38
CONECT   36  121  122  123
CONECT   37  124  125  126
CONECT   38   39  127  128
CONECT   39   40
CONECT   40   41   41   42   43
CONECT   42  129
CONECT   43   44
CONECT   44   45   45   46   47
CONECT   46  130
CONECT   47   48
CONECT   48   49  131  132
CONECT   49   50   64  133
CONECT   50   51
CONECT   51   52   62  134
CONECT   52   53   61
CONECT   53   54   54  135
CONECT   54   55
CONECT   55   56   56   61
CONECT   56   57   58
CONECT   57  136  137
CONECT   58   59   59
CONECT   59   60  138
CONECT   60   61   61
CONECT   62   63   64  139
CONECT   63  140
CONECT   64   65  141
CONECT   65   66
CONECT   66   67   67   68   69
CONECT   68  142
CONECT   69  143
END
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SMILES for HMDB0001359 (Phytanoyl-CoA)

CC(C)CCC[C@@H](C)CCC[C@@H](C)CCC[C@H](C)CC(=O)SCCNC(=O)CCNC(=O)C(O)C(C)(C)COP(O)(=O)OP(O)(=O)OC[C@H]1O[C@H]([C@H](O)[C@@H]1OP(O)(O)=O)N1C=NC2=C1N=CN=C2N
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INCHI for HMDB0001359 (Phytanoyl-CoA)

InChI=1S/C41H74N7O17P3S/c1-26(2)11-8-12-27(3)13-9-14-28(4)15-10-16-29(5)21-32(50)69-20-19-43-31(49)17-18-44-39(53)36(52)41(6,7)23-62-68(59,60)65-67(57,58)61-22-30-35(64-66(54,55)56)34(51)40(63-30)48-25-47-33-37(42)45-24-46-38(33)48/h24-30,34-36,40,51-52H,8-23H2,1-7H3,(H,43,49)(H,44,53)(H,57,58)(H,59,60)(H2,42,45,46)(H2,54,55,56)/t27-,28-,29+,30-,34-,35-,36?,40-/m1/s1
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View in JSmolView Stereo Labels
Synonyms
ValueSource
3,7,11,15-Tetramethyl hexadecanoyl CoAHMDB
3,7,11,15-Tetramethyl hexadecanoyl coenzyme AHMDB
Phytanoyl CoAHMDB
Phytanoyl coenzyme AHMDB
Phytanoyl-coenzyme AHMDB
Phytanyl CoAHMDB
Phytanyl coenzyme AHMDB
Chemical FormulaC41H74N7O17P3S
Average Molecular Weight1062.049
Monoisotopic Molecular Weight1061.407474203
IUPAC Name{[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-4-hydroxy-2-({[hydroxy({hydroxy[3-hydroxy-2,2-dimethyl-3-({2-[(2-{[(3S,7R,11R)-3,7,11,15-tetramethylhexadecanoyl]sulfanyl}ethyl)carbamoyl]ethyl}carbamoyl)propoxy]phosphoryl}oxy)phosphoryl]oxy}methyl)oxolan-3-yl]oxy}phosphonic acid
Traditional Name[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-4-hydroxy-2-[({hydroxy[hydroxy(3-hydroxy-2,2-dimethyl-3-({2-[(2-{[(3S,7R,11R)-3,7,11,15-tetramethylhexadecanoyl]sulfanyl}ethyl)carbamoyl]ethyl}carbamoyl)propoxy)phosphoryl]oxyphosphoryl}oxy)methyl]oxolan-3-yl]oxyphosphonic acid
CAS Registry Number146622-45-9
SMILES
CC(C)CCC[C@@H](C)CCC[C@@H](C)CCC[C@H](C)CC(=O)SCCNC(=O)CCNC(=O)C(O)C(C)(C)COP(O)(=O)OP(O)(=O)OC[C@H]1O[C@H]([C@H](O)[C@@H]1OP(O)(O)=O)N1C=NC2=C1N=CN=C2N
InChI Identifier
InChI=1S/C41H74N7O17P3S/c1-26(2)11-8-12-27(3)13-9-14-28(4)15-10-16-29(5)21-32(50)69-20-19-43-31(49)17-18-44-39(53)36(52)41(6,7)23-62-68(59,60)65-67(57,58)61-22-30-35(64-66(54,55)56)34(51)40(63-30)48-25-47-33-37(42)45-24-46-38(33)48/h24-30,34-36,40,51-52H,8-23H2,1-7H3,(H,43,49)(H,44,53)(H,57,58)(H,59,60)(H2,42,45,46)(H2,54,55,56)/t27-,28-,29+,30-,34-,35-,36?,40-/m1/s1
InChI KeyNRJQGHHZMSOUEN-IYJVDCLDSA-N
Chemical Taxonomy
Description Belongs to the class of organic compounds known as long-chain fatty acyl coas. These are acyl CoAs where the group acylated to the coenzyme A moiety is a long aliphatic chain of 13 to 21 carbon atoms.
KingdomOrganic compounds
Super ClassLipids and lipid-like molecules
ClassFatty Acyls
Sub ClassFatty acyl thioesters
Direct ParentLong-chain fatty acyl CoAs
Alternative Parents
Substituents
  • Coenzyme a or derivatives
  • Purine ribonucleoside 3',5'-bisphosphate
  • Purine ribonucleoside bisphosphate
  • Purine ribonucleoside diphosphate
  • Diterpenoid
  • Pentose phosphate
  • Ribonucleoside 3'-phosphate
  • Pentose-5-phosphate
  • Beta amino acid or derivatives
  • Glycosyl compound
  • N-glycosyl compound
  • Pentose monosaccharide
  • 6-aminopurine
  • Monosaccharide phosphate
  • Organic pyrophosphate
  • Imidazopyrimidine
  • Purine
  • Aminopyrimidine
  • Monoalkyl phosphate
  • Organic phosphoric acid derivative
  • Imidolactam
  • Alkyl phosphate
  • Pyrimidine
  • Phosphoric acid ester
  • Monosaccharide
  • Fatty amide
  • N-substituted imidazole
  • N-acyl-amine
  • Tetrahydrofuran
  • Heteroaromatic compound
  • Imidazole
  • Azole
  • Secondary alcohol
  • Secondary carboxylic acid amide
  • Thiocarboxylic acid ester
  • Amino acid or derivatives
  • Carbothioic s-ester
  • Carboxamide group
  • Azacycle
  • Organoheterocyclic compound
  • Sulfenyl compound
  • Thiocarboxylic acid or derivatives
  • Oxacycle
  • Carboxylic acid derivative
  • Organic oxygen compound
  • Organic nitrogen compound
  • Organic oxide
  • Carbonyl group
  • Primary amine
  • Hydrocarbon derivative
  • Organopnictogen compound
  • Alcohol
  • Amine
  • Organosulfur compound
  • Organooxygen compound
  • Organonitrogen compound
  • Aromatic heteropolycyclic compound
Molecular FrameworkAromatic heteropolycyclic compounds
External DescriptorsNot Available
Ontology
Not AvailableNot Available
Physical Properties
StateSolid
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
PropertyValueSource
Water Solubility0.77 g/LALOGPS
logP3ALOGPS
logP0.65ChemAxon
logS-3.1ALOGPS
pKa (Strongest Acidic)0.83ChemAxon
pKa (Strongest Basic)4.95ChemAxon
Physiological Charge-4ChemAxon
Hydrogen Acceptor Count17ChemAxon
Hydrogen Donor Count9ChemAxon
Polar Surface Area363.63 ŲChemAxon
Rotatable Bond Count34ChemAxon
Refractivity254.84 m³·mol⁻¹ChemAxon
Polarizability106.07 ųChemAxon
Number of Rings3ChemAxon
BioavailabilityNoChemAxon
Rule of FiveNoChemAxon
Ghose FilterNoChemAxon
Veber's RuleNoChemAxon
MDDR-like RuleYesChemAxon
Predicted Chromatographic Properties

Predicted Collision Cross Sections

PredictorAdduct TypeCCS Value (Å2)Reference
AllCCS[M+H]+310.62732859911
AllCCS[M-H]-293.81332859911
DeepCCS[M+H]+280.52530932474
DeepCCS[M-H]-277.60530932474
DeepCCS[M-2H]-314.70530932474
DeepCCS[M+Na]+289.18830932474
AllCCS[M+H]+310.632859911
AllCCS[M+H-H2O]+311.032859911
AllCCS[M+NH4]+310.232859911
AllCCS[M+Na]+310.132859911
AllCCS[M-H]-293.832859911
AllCCS[M+Na-2H]-300.232859911
AllCCS[M+HCOO]-307.032859911

Predicted Kovats Retention Indices

Not Available
Spectra

MS/MS Spectra

Spectrum TypeDescriptionSplash KeyDeposition DateSourceView
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Phytanoyl-CoA 10V, Positive-QTOFsplash10-000i-4901110200-c8e2fb3674f9f0da45d72017-09-01Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Phytanoyl-CoA 20V, Positive-QTOFsplash10-000i-1912130000-09f25ff6c40daa790a9c2017-09-01Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Phytanoyl-CoA 40V, Positive-QTOFsplash10-000i-1900010000-5ec62b87df52230c45402017-09-01Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Phytanoyl-CoA 10V, Negative-QTOFsplash10-01rx-9652431500-04d5c22d9e4fc31c0be82017-09-01Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Phytanoyl-CoA 20V, Negative-QTOFsplash10-001l-5920210100-9766416a475cedb2730d2017-09-01Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Phytanoyl-CoA 40V, Negative-QTOFsplash10-057i-5900100000-b16bf5536d8209fb8b472017-09-01Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Phytanoyl-CoA 10V, Positive-QTOFsplash10-03di-9000000003-ffbd4b8db32357807b8f2021-09-22Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Phytanoyl-CoA 20V, Positive-QTOFsplash10-000i-9400000028-f96e20f26253411b40602021-09-22Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Phytanoyl-CoA 40V, Positive-QTOFsplash10-0a4i-0100390000-3eea46ca9905d83557892021-09-22Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Phytanoyl-CoA 10V, Negative-QTOFsplash10-03di-9000000100-482574b4d2f10c2535c12021-09-22Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Phytanoyl-CoA 20V, Negative-QTOFsplash10-03fu-9100101200-f50e099d92a0038c6df02021-09-22Wishart LabView Spectrum
Predicted LC-MS/MSPredicted LC-MS/MS Spectrum - Phytanoyl-CoA 40V, Negative-QTOFsplash10-056u-9204400301-256ca3412920b74581222021-09-22Wishart LabView Spectrum
Biological Properties
Cellular Locations
  • Cytoplasm
  • Extracellular
  • Membrane
  • Peroxisome
Biospecimen LocationsNot Available
Tissue LocationsNot Available
Pathways
Normal Concentrations
Not Available
Abnormal Concentrations
Not Available
Associated Disorders and Diseases
Disease ReferencesNone
Associated OMIM IDsNone
DrugBank IDNot Available
Phenol Explorer Compound IDNot Available
FooDB IDFDB022577
KNApSAcK IDNot Available
Chemspider ID388712
KEGG Compound IDC02060
BioCyc IDNot Available
BiGG ID2364522
Wikipedia LinkPhytanoyl-CoA
METLIN ID6189
PubChem Compound439640
PDB IDNot Available
ChEBI ID15538
Food Biomarker OntologyNot Available
VMH IDCE5122
MarkerDB IDNot Available
Good Scents IDNot Available
References
Synthesis ReferenceKershaw, N. J.; Mukherji, M.; MacKinnon, C. H.; Claridge, T. D. W.; Odell, B.; Wierzbicki, A. S.; Lloyd, M. D.; Schofield, C. J. Studies on phytanoyl-CoA 2-hydroxylase and synthesis of phytanoyl-Coenzyme A. Bioorganic & Medicinal Chemistry Letters (2001) 11(18), 17 September 2001, p.2545-2548
Material Safety Data Sheet (MSDS)Not Available
General References
  1. Bunik VI, Raddatz G, Wanders RJ, Reiser G: Brain pyruvate and 2-oxoglutarate dehydrogenase complexes are mitochondrial targets of the CoA ester of the Refsum disease marker phytanic acid. FEBS Lett. 2006 Jun 12;580(14):3551-7. Epub 2006 May 24. [PubMed:16737698 ]
  2. Schofield CJ, McDonough MA: Structural and mechanistic studies on the peroxisomal oxygenase phytanoyl-CoA 2-hydroxylase (PhyH). Biochem Soc Trans. 2007 Nov;35(Pt 5):870-5. [PubMed:17956235 ]
  3. Hostetler HA, Kier AB, Schroeder F: Very-long-chain and branched-chain fatty acyl-CoAs are high affinity ligands for the peroxisome proliferator-activated receptor alpha (PPARalpha). Biochemistry. 2006 Jun 20;45(24):7669-81. [PubMed:16768463 ]

Enzymes

Enzyme Details
1. Carnitine O-acetyltransferase
General function:
Involved in acyltransferase activity
Specific function:
Carnitine acetylase is specific for short chain fatty acids. Carnitine acetylase seems to affect the flux through the pyruvate dehydrogenase complex. It may be involved as well in the transport of acetyl-CoA into mitochondria.
Gene Name:
CRAT
Uniprot ID:
P43155
Molecular weight:
70875.095
Enzyme Details
2. Phytanoyl-CoA dioxygenase, peroxisomal
General function:
Involved in electron carrier activity
Specific function:
Converts phytanoyl-CoA to 2-hydroxyphytanoyl-CoA.
Gene Name:
PHYH
Uniprot ID:
O14832
Molecular weight:
38538.065
Reactions
Phytanoyl-CoA + Oxoglutaric acid + Oxygen → 2-Hydroxyphytanoyl-CoA + Succinic acid + CO(2)details
Enzyme Details
3. Long-chain-fatty-acid--CoA ligase 1
General function:
Involved in catalytic activity
Specific function:
Activation of long-chain fatty acids for both synthesis of cellular lipids, and degradation via beta-oxidation. Preferentially uses palmitoleate, oleate and linoleate.
Gene Name:
ACSL1
Uniprot ID:
P33121
Molecular weight:
77942.685