Protein Info for COO64_RS25515 in Pseudomonas sp. SVBP6

Name: pcaF
Annotation: 3-oxoadipyl-CoA thiolase

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

Best Hits

Swiss-Prot: 70% identical to PAAJ_ECOLI: 3-oxoadipyl-CoA/3-oxo-5,6-dehydrosuberyl-CoA thiolase (paaJ) from Escherichia coli (strain K12)

KEGG orthology group: None (inferred from 83% identity to pmk:MDS_2865)

MetaCyc: 84% identical to beta-ketoadipyl-CoA thiolase (Pseudomonas sp. Y2)
RXN0-6512 [EC: 2.3.1.223]; 3-oxoadipyl-CoA thiolase. [EC: 2.3.1.223, 2.3.1.174]

Predicted SEED Role

"3-ketoacyl-CoA thiolase (EC 2.3.1.16) @ Acetyl-CoA acetyltransferase (EC 2.3.1.9)" (EC 2.3.1.16, EC 2.3.1.9)

MetaCyc Pathways

oleate β-oxidation (30/35 steps found)
superpathway of phenylethylamine degradation (11/11 steps found)
aromatic compounds degradation via β-ketoadipate (9/9 steps found)
phenylacetate degradation I (aerobic) (9/9 steps found)
catechol degradation III (ortho-cleavage pathway) (6/6 steps found)
fatty acid salvage (6/6 steps found)
adipate degradation (5/5 steps found)
superpathway of salicylate degradation (6/7 steps found)
superpathway of glyoxylate cycle and fatty acid degradation (11/14 steps found)
benzoyl-CoA biosynthesis (3/3 steps found)
ketolysis (3/3 steps found)
3-oxoadipate degradation (2/2 steps found)
(R)- and (S)-3-hydroxybutanoate biosynthesis (engineered) (4/5 steps found)
adipate biosynthesis (4/5 steps found)
photosynthetic 3-hydroxybutanoate biosynthesis (engineered) (19/26 steps found)
fatty acid β-oxidation I (generic) (5/7 steps found)
polyhydroxybutanoate biosynthesis (2/3 steps found)
L-isoleucine degradation I (4/6 steps found)
pyruvate fermentation to butanol II (engineered) (4/6 steps found)
1-butanol autotrophic biosynthesis (engineered) (19/27 steps found)
acetoacetate degradation (to acetyl CoA) (1/2 steps found)
valproate β-oxidation (6/9 steps found)
4-hydroxybenzoate biosynthesis III (plants) (3/5 steps found)
fatty acid β-oxidation II (plant peroxisome) (3/5 steps found)
glutaryl-CoA degradation (3/5 steps found)
ketogenesis (3/5 steps found)
2-deoxy-D-ribose degradation II (5/8 steps found)
(2S)-ethylmalonyl-CoA biosynthesis (2/4 steps found)
pyruvate fermentation to hexanol (engineered) (7/11 steps found)
toluene degradation III (aerobic) (via p-cresol) (7/11 steps found)
4-methylcatechol degradation (ortho cleavage) (4/7 steps found)
acetyl-CoA fermentation to butanoate (4/7 steps found)
fatty acid β-oxidation VI (mammalian peroxisome) (4/7 steps found)
2-methyl-branched fatty acid β-oxidation (9/14 steps found)
5,6-dehydrokavain biosynthesis (engineered) (6/10 steps found)
L-glutamate degradation V (via hydroxyglutarate) (6/10 steps found)
propanoate fermentation to 2-methylbutanoate (3/6 steps found)
superpathway of Clostridium acetobutylicum acidogenic fermentation (5/9 steps found)
glycerol degradation to butanol (10/16 steps found)
fatty acid β-oxidation VII (yeast peroxisome) (2/5 steps found)
pyruvate fermentation to butanol I (4/8 steps found)
(8E,10E)-dodeca-8,10-dienol biosynthesis (6/11 steps found)
benzoyl-CoA degradation I (aerobic) (3/7 steps found)
pyruvate fermentation to butanoate (3/7 steps found)
ethylbenzene degradation (anaerobic) (1/5 steps found)
isopropanol biosynthesis (engineered) (1/5 steps found)
pyruvate fermentation to acetone (1/5 steps found)
3-hydroxypropanoate/4-hydroxybutanate cycle (10/18 steps found)
mandelate degradation to acetyl-CoA (10/18 steps found)
3-phenylpropanoate degradation (4/10 steps found)
9-cis, 11-trans-octadecadienoyl-CoA degradation (isomerase-dependent, yeast) (4/10 steps found)
superpathway of geranylgeranyldiphosphate biosynthesis I (via mevalonate) (4/10 steps found)
10-trans-heptadecenoyl-CoA degradation (MFE-dependent, yeast) (1/6 steps found)
4-ethylphenol degradation (anaerobic) (1/6 steps found)
superpathway of Clostridium acetobutylicum solventogenic fermentation (6/13 steps found)
benzoate biosynthesis I (CoA-dependent, β-oxidative) (3/9 steps found)
2-methylpropene degradation (2/8 steps found)
mevalonate pathway I (eukaryotes and bacteria) (1/7 steps found)
mevalonate pathway II (haloarchaea) (1/7 steps found)
L-lysine fermentation to acetate and butanoate (3/10 steps found)
superpathway of Clostridium acetobutylicum acidogenic and solventogenic fermentation (8/17 steps found)
4-oxopentanoate degradation (2/9 steps found)
isoprene biosynthesis II (engineered) (1/8 steps found)
mevalonate pathway III (Thermoplasma) (1/8 steps found)
mevalonate pathway IV (archaea) (1/8 steps found)
ethylmalonyl-CoA pathway (3/11 steps found)
methyl tert-butyl ether degradation (2/10 steps found)
L-glutamate degradation VII (to butanoate) (3/12 steps found)
10-cis-heptadecenoyl-CoA degradation (yeast) (2/12 steps found)
10-trans-heptadecenoyl-CoA degradation (reductase-dependent, yeast) (2/12 steps found)
L-tryptophan degradation III (eukaryotic) (4/15 steps found)
superpathway of aromatic compound degradation via 3-oxoadipate (18/35 steps found)
(4Z,7Z,10Z,13Z,16Z)-docosapentaenoate biosynthesis (6-desaturase) (2/13 steps found)
docosahexaenoate biosynthesis III (6-desaturase, mammals) (2/14 steps found)
crotonate fermentation (to acetate and cyclohexane carboxylate) (3/16 steps found)
benzoate fermentation (to acetate and cyclohexane carboxylate) (3/17 steps found)
superpathway of aerobic toluene degradation (12/30 steps found)
jasmonic acid biosynthesis (4/19 steps found)
toluene degradation VI (anaerobic) (3/18 steps found)
cholesterol degradation to androstenedione I (cholesterol oxidase) (2/17 steps found)
superpathway of L-lysine degradation (20/43 steps found)
androstenedione degradation I (aerobic) (7/25 steps found)
sitosterol degradation to androstenedione (1/18 steps found)
platensimycin biosynthesis (6/26 steps found)
superpathway of testosterone and androsterone degradation (7/28 steps found)
cholesterol degradation to androstenedione II (cholesterol dehydrogenase) (2/22 steps found)
androstenedione degradation II (anaerobic) (5/27 steps found)
superpathway of ergosterol biosynthesis I (3/26 steps found)
Methanobacterium thermoautotrophicum biosynthetic metabolism (20/56 steps found)
superpathway of cholesterol degradation I (cholesterol oxidase) (9/42 steps found)
superpathway of cholesterol biosynthesis (3/38 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

Isozymes

Compare fitness of predicted isozymes for: 2.3.1.16, 2.3.1.174, 2.3.1.9

Use Curated BLAST to search for 2.3.1.16 or 2.3.1.174 or 2.3.1.223 or 2.3.1.9

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Compare to protein structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

Find the best match in UniProt

Protein Sequence (403 amino acids)

>COO64_RS25515 3-oxoadipyl-CoA thiolase (Pseudomonas sp. SVBP6)
MTDALIIDALRTPIGRYAGALSSLRADDLGALPLRALCQRHPQVDWSAVDDVIYGCANQA
GEDNRNVARMSALLAGLPPSVPGTTVNRLCGSGLDAIGSGARAIRCGEAGLLLVGGVESM
SRAPLVMAKAEQAFSRQAELHDTTLGWRFVNPLMQQQYGIDSMPETAENVAAQFNISRAD
QDAFALRSQQRAAAAQASGRLAREIVPVTIAQRKGPAHVVVHDEHPRAETTLAQLQKLPT
PFRDNGTVTAGNASGLNDGACALLLASREQAERFALKARGRVLAMATAGVEPRIMGIGPV
PATRKALALAGLSLADMEVIELNEAFAAQGLAVLRELGLADDDPRVNPNGGAIALGHPLG
MSGARLVTTALHELEQRQARYALCTMCIGVGQGIALIIERLED