Protein Info for GFF589 in Xanthobacter sp. DMC5

Annotation: L-carnitine dehydrogenase

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

• PF02737: 3HCDH_N
  • amino acids 11 to 185 (175 residues), 149.6 bits, E=9.7e-48
• PF00725: 3HCDH
  • amino acids 189 to 250 (62 residues), 48.2 bits, E=1.3e-16

Best Hits

Swiss-Prot: 44% identical to LCDH_BURPS: L-carnitine dehydrogenase (lcdH) from Burkholderia pseudomallei (strain K96243)

KEGG orthology group: None (inferred from 81% identity to xau:Xaut_4290)

Predicted SEED Role

"3-hydroxyacyl-CoA dehydrogenase (EC 1.1.1.35)" in subsystem Acetyl-CoA fermentation to Butyrate or Isoleucine degradation or Polyhydroxybutyrate metabolism or Valine degradation or n-Phenylalkanoic acid degradation (EC 1.1.1.35)

MetaCyc Pathways

• oleate β-oxidation (28/35 steps found)
• phenylacetate degradation I (aerobic) (9/9 steps found)
• superpathway of phenylethylamine degradation (10/11 steps found)
• 1-butanol autotrophic biosynthesis (engineered) (21/27 steps found)
• adipate degradation (5/5 steps found)
• photosynthetic 3-hydroxybutanoate biosynthesis (engineered) (20/26 steps found)
• superpathway of glyoxylate cycle and fatty acid degradation (11/14 steps found)
• benzoyl-CoA biosynthesis (3/3 steps found)
• fatty acid salvage (5/6 steps found)
• adipate biosynthesis (4/5 steps found)
• fatty acid β-oxidation I (generic) (5/7 steps found)
• L-isoleucine degradation I (4/6 steps found)
• propanoate fermentation to 2-methylbutanoate (4/6 steps found)
• pyruvate fermentation to butanol II (engineered) (4/6 steps found)
• superpathway of Clostridium acetobutylicum acidogenic fermentation (6/9 steps found)
• glycerol degradation to butanol (11/16 steps found)
• (R)- and (S)-3-hydroxybutanoate biosynthesis (engineered) (3/5 steps found)
• fatty acid β-oxidation II (plant peroxisome) (3/5 steps found)
• glutaryl-CoA degradation (3/5 steps found)
• L-valine degradation I (5/8 steps found)
• pyruvate fermentation to hexanol (engineered) (7/11 steps found)
• 3-hydroxypropanoate/4-hydroxybutanate cycle (12/18 steps found)
• pyruvate fermentation to butanoate (4/7 steps found)
• 2-methyl-branched fatty acid β-oxidation (9/14 steps found)
• L-glutamate degradation V (via hydroxyglutarate) (6/10 steps found)
• methyl ketone biosynthesis (engineered) (3/6 steps found)
• valproate β-oxidation (5/9 steps found)
• 4-hydroxybenzoate biosynthesis III (plants) (2/5 steps found)
• (8E,10E)-dodeca-8,10-dienol biosynthesis (6/11 steps found)
• benzoyl-CoA degradation I (aerobic) (3/7 steps found)
• fatty acid β-oxidation VI (mammalian peroxisome) (3/7 steps found)
• 3-phenylpropanoate degradation (5/10 steps found)
• superpathway of Clostridium acetobutylicum acidogenic and solventogenic fermentation (10/17 steps found)
• 6-gingerol analog biosynthesis (engineered) (2/6 steps found)
• superpathway of Clostridium acetobutylicum solventogenic fermentation (7/13 steps found)
• benzoate biosynthesis I (CoA-dependent, β-oxidative) (4/9 steps found)
• pyruvate fermentation to butanol I (3/8 steps found)
• L-glutamate degradation VII (to butanoate) (5/12 steps found)
• 2-methylpropene degradation (2/8 steps found)
• methyl tert-butyl ether degradation (2/10 steps found)
• L-tryptophan degradation III (eukaryotic) (4/15 steps found)
• benzoate fermentation (to acetate and cyclohexane carboxylate) (5/17 steps found)
• crotonate fermentation (to acetate and cyclohexane carboxylate) (4/16 steps found)
• toluene degradation VI (anaerobic) (3/18 steps found)
• cholesterol degradation to androstenedione I (cholesterol oxidase) (2/17 steps found)
• Spodoptera littoralis pheromone biosynthesis (4/22 steps found)
• androstenedione degradation I (aerobic) (6/25 steps found)
• platensimycin biosynthesis (6/26 steps found)
• cholesterol degradation to androstenedione II (cholesterol dehydrogenase) (3/22 steps found)
• superpathway of testosterone and androsterone degradation (6/28 steps found)
• androstenedione degradation II (anaerobic) (4/27 steps found)
• superpathway of cholesterol degradation I (cholesterol oxidase) (8/42 steps found)
• superpathway of cholesterol degradation II (cholesterol dehydrogenase) (9/47 steps found)
• superpathway of cholesterol degradation III (oxidase) (5/49 steps found)

KEGG Metabolic Maps

• Benzoate degradation via CoA ligation
• Bile acid biosynthesis
• Biosynthesis of plant hormones
• Butanoate metabolism
• Caprolactam degradation
• Fatty acid elongation in mitochondria
• Fatty acid metabolism
• Geraniol degradation
• Lysine degradation
• Tryptophan metabolism
• Valine, leucine and isoleucine degradation

Isozymes

Compare fitness of predicted isozymes for: 1.1.1.35

Use Curated BLAST to search for 1.1.1.35

Protein Sequence (345 amino acids)

>GFF589 L-carnitine dehydrogenase (Xanthobacter sp. DMC5)
MSHLSPPIRRVAVIGAGTIGASWAALFLSRGLEVVVSDPAPGAREATQALISGAWPVLTQ
LGGEGWIDPTAWRFEPDPVAAVEGADFVQENAPERYEVKQKLFPALDAVLPPEVVIASSS
SGLLASRISEGCRHRERCLIGHPFNPPHLIPLVEVVGGAHASRDAIARAMAFYRWLGKHP
IEIRKEVPGHVANRLQAALWREAIHLVAEGVASVEDVDAAVSEGPGLRWALMGQHMTFHL
GGGAGGLGHFMHHLLPAVETWWDDLGAPAMTPELQAALVAGVEAEAAGRSMADLAQRRDA
LLTQIVALKHAADVSDEQAEISARLDEALEESFPDSDPIAVRGPD