Protein Info for SO1677 in Shewanella oneidensis MR-1

Name: atoB
Updated annotation (from data): 3-ketoacyl-CoA thiolase [isoleucine degradation] (EC 2.3.1.16)
Rationale: Specifically important for utilizing L-Isoleucine. Automated validation from mutant phenotype: the predicted function (METHYLACETOACETYLCOATHIOL-RXN) was linked to the condition via a MetaCyc pathway. This annotation was also checked manually.
Original annotation: acetyl-CoA acetyltransferase (NCBI ptt file)

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: 51% identical to ATOB_PSEAE: Acetyl-CoA acetyltransferase (atoB) from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)

KEGG orthology group: K00626, acetyl-CoA C-acetyltransferase [EC: 2.3.1.9] (inferred from 100% identity to son:SO_1677)

MetaCyc: 56% identical to acetyl-CoA C-acetyltransferase (Methylibium petroleiphilum PM1)
Acetyl-CoA C-acyltransferase. [EC: 2.3.1.16, 2.3.1.9]

Predicted SEED Role

"3-ketoacyl-CoA thiolase [isoleucine degradation] (EC 2.3.1.16)" in subsystem Isobutyryl-CoA to Propionyl-CoA Module or Isoleucine degradation (EC 2.3.1.16)

MetaCyc Pathways

oleate β-oxidation (32/35 steps found)
photosynthetic 3-hydroxybutanoate biosynthesis (engineered) (21/26 steps found)
fatty acid salvage (6/6 steps found)
1-butanol autotrophic biosynthesis (engineered) (21/27 steps found)
(R)- and (S)-3-hydroxybutanoate biosynthesis (engineered) (5/5 steps found)
fatty acid β-oxidation I (generic) (6/7 steps found)
2-methyl-branched fatty acid β-oxidation (11/14 steps found)
superpathway of glyoxylate cycle and fatty acid degradation (11/14 steps found)
benzoyl-CoA biosynthesis (3/3 steps found)
L-isoleucine degradation I (5/6 steps found)
pyruvate fermentation to butanol II (engineered) (5/6 steps found)
ketolysis (2/3 steps found)
polyhydroxybutanoate biosynthesis (2/3 steps found)
propanoate fermentation to 2-methylbutanoate (4/6 steps found)
acetoacetate degradation (to acetyl CoA) (1/2 steps found)
valproate β-oxidation (6/9 steps found)
fatty acid β-oxidation II (plant peroxisome) (3/5 steps found)
glutaryl-CoA degradation (3/5 steps found)
(2S)-ethylmalonyl-CoA biosynthesis (2/4 steps found)
pyruvate fermentation to hexanol (engineered) (7/11 steps found)
acetyl-CoA fermentation to butanoate (4/7 steps found)
5,6-dehydrokavain biosynthesis (engineered) (6/10 steps found)
superpathway of Clostridium acetobutylicum acidogenic fermentation (5/9 steps found)
glycerol degradation to butanol (10/16 steps found)
4-hydroxybenzoate biosynthesis III (plants) (2/5 steps found)
ketogenesis (2/5 steps found)
2-deoxy-D-ribose degradation II (4/8 steps found)
pyruvate fermentation to butanol I (4/8 steps found)
(8E,10E)-dodeca-8,10-dienol biosynthesis (6/11 steps found)
fatty acid β-oxidation VI (mammalian peroxisome) (3/7 steps found)
pyruvate fermentation to butanoate (3/7 steps found)
L-glutamate degradation V (via hydroxyglutarate) (5/10 steps found)
ethylbenzene degradation (anaerobic) (1/5 steps found)
fatty acid β-oxidation VII (yeast peroxisome) (1/5 steps found)
isopropanol biosynthesis (engineered) (1/5 steps found)
pyruvate fermentation to acetone (1/5 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)
L-glutamate degradation VII (to butanoate) (4/12 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)
methyl tert-butyl ether degradation (2/10 steps found)
ethylmalonyl-CoA pathway (2/11 steps found)
3-hydroxypropanoate/4-hydroxybutanate cycle (7/18 steps found)
10-cis-heptadecenoyl-CoA degradation (yeast) (2/12 steps found)
10-trans-heptadecenoyl-CoA degradation (reductase-dependent, yeast) (2/12 steps found)
(4Z,7Z,10Z,13Z,16Z)-docosapentaenoate biosynthesis (6-desaturase) (2/13 steps found)
L-tryptophan degradation III (eukaryotic) (3/15 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)
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)
Spodoptera littoralis pheromone biosynthesis (4/22 steps found)
sitosterol degradation to androstenedione (1/18 steps found)
androstenedione degradation I (aerobic) (6/25 steps found)
platensimycin biosynthesis (6/26 steps found)
cholesterol degradation to androstenedione II (cholesterol dehydrogenase) (2/22 steps found)
superpathway of testosterone and androsterone degradation (6/28 steps found)
androstenedione degradation II (anaerobic) (4/27 steps found)
superpathway of ergosterol biosynthesis I (3/26 steps found)
Methanobacterium thermoautotrophicum biosynthetic metabolism (22/56 steps found)
superpathway of cholesterol degradation I (cholesterol oxidase) (8/42 steps found)
superpathway of L-lysine degradation (8/43 steps found)
superpathway of cholesterol biosynthesis (3/38 steps found)
superpathway of cholesterol degradation II (cholesterol dehydrogenase) (8/47 steps found)
superpathway of cholesterol degradation III (oxidase) (4/49 steps found)

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 2.3.1.16, 2.3.1.9

Use Curated BLAST to search for 2.3.1.16 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)

Search 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

See Q8EGC7 at UniProt or InterPro

Protein Sequence (396 amino acids)

>SO1677 3-ketoacyl-CoA thiolase [isoleucine degradation] (EC 2.3.1.16) (Shewanella oneidensis MR-1)
MSTELLNQEIVIVAAKRTPMGSFQGSLSGITSLSLAATAIKALLADTQVAPDKVDEVLMG
CVLPAGLGQAPARQATLGAGLPLSVGATTVNKVCGSGMKTVMLAHDLIKAGSAKVVIAGG
MESMSQAPYLLDKARAGIRMGHGKVLDHMFLDGLEDAYTGGAMGTFAQKTADEFGITREQ
MDAFALSSLEKANAAINSGAFKTEIVPVTVSDRRGDVTIDTDEQPGNARPEKIPTLRPAF
AKDGTITAANSSSISDGAAALMLTTRANAEQLGLTVLATIKGHTTHAQEPALFTTAPVGA
MAKLLSNVGWSKDEVDLFEINEAFAMVTMLAVSELGLDMTKVNVNGGACALGHPIGCSGA
RLLVTLIHALKARGLKRGVASLCIGGGEATAMAIEV