Protein Info for Pf1N1B4_1020 in Pseudomonas fluorescens FW300-N1B4
Annotation: Branched-chain alpha-keto acid dehydrogenase, E1 component, alpha subunit (EC 1.2.4.4)
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: 36% identical to ODPA_MYCGE: Pyruvate dehydrogenase E1 component subunit alpha (pdhA) from Mycoplasma genitalium (strain ATCC 33530 / G-37 / NCTC 10195)
KEGG orthology group: K00161, pyruvate dehydrogenase E1 component subunit alpha [EC: 1.2.4.1] (inferred from 84% identity to avn:Avin_10770)Predicted SEED Role
"Branched-chain alpha-keto acid dehydrogenase, E1 component, alpha subunit (EC 1.2.4.4)" in subsystem Isoleucine degradation or Leucine Degradation and HMG-CoA Metabolism or Valine degradation (EC 1.2.4.4)
MetaCyc Pathways
- superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle (17/22 steps found)
- 2-oxoisovalerate decarboxylation to isobutanoyl-CoA (3/3 steps found)
- pyruvate decarboxylation to acetyl CoA I (3/3 steps found)
KEGG Metabolic Maps
- Biosynthesis of alkaloids derived from histidine and purine
- Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
- Biosynthesis of alkaloids derived from shikimate pathway
- Biosynthesis of alkaloids derived from terpenoid and polyketide
- Biosynthesis of phenylpropanoids
- Biosynthesis of plant hormones
- Biosynthesis of terpenoids and steroids
- Butanoate metabolism
- Citrate cycle (TCA cycle)
- Glycolysis / Gluconeogenesis
- Pyruvate metabolism
- Valine, leucine and isoleucine biosynthesis
- Valine, leucine and isoleucine degradation
Isozymes
Compare fitness of predicted isozymes for: 1.2.4.1, 1.2.4.4
Use Curated BLAST to search for 1.2.4.1 or 1.2.4.4
Sequence Analysis Tools
PaperBLAST (search for papers about homologs of this protein)
Search CDD (the Conserved Domains Database, which includes COG and superfam)
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 (332 amino acids)
>Pf1N1B4_1020 Branched-chain alpha-keto acid dehydrogenase, E1 component, alpha subunit (EC 1.2.4.4) (Pseudomonas fluorescens FW300-N1B4) LTRLYRQMVLTRLFDQKAVALQRTGRIGTYAPTLGQEAIGVAVGSLMHAEDVLIPYYRDT AVQLMRGVRMEEILLYWGGDERGSDFADPAVAQDFPICVPIATQALHACGVASAFKIRGE HRVAVTTCGDGGTSKGDFLEALNVAGAWQLPVVFMVNNNQWAISVPRRIQCGAPTLAQKA IGAGFHGEQVDGNDMLAVYDRVQAALERTRHGKGPVLLECLSYRLGDHTTADDATRYRSA DEVKQAWLEEPIKRLQRFMAGQGVWDEGREQALISECQGLVQRAVDNFEAAGLQAPESVM DHVYAQWPQALAEQREDFLERVARRTGGSSDE