Protein Info for PP_1893 in Pseudomonas putida KT2440
Annotation: medium-long chain acyl-CoA 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
Best Hits
Swiss-Prot: 58% identical to FADE_SALTY: Acyl-coenzyme A dehydrogenase (fadE) from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
KEGG orthology group: K06445, acyl-CoA dehydrogenase [EC: 1.3.99.-] (inferred from 100% identity to ppu:PP_1893)MetaCyc: 75% identical to medium-chain acyl-CoA dehydrogenase (Pseudomonas aeruginosa PAO1)
RXN-13615 [EC: 1.3.8.7]
Predicted SEED Role
"Butyryl-CoA dehydrogenase (EC 1.3.99.2)" in subsystem Acetyl-CoA fermentation to Butyrate or Anaerobic respiratory reductases or Butanol Biosynthesis or Isobutyryl-CoA to Propionyl-CoA Module or Isoleucine degradation or Valine degradation (EC 1.3.99.2)
MetaCyc Pathways
- oleate β-oxidation (30/35 steps found)
- fatty acid salvage (6/6 steps found)
- adipate degradation (5/5 steps found)
- pyruvate fermentation to hexanol (engineered) (8/11 steps found)
- 2-methyl-branched fatty acid β-oxidation (10/14 steps found)
- pyruvate fermentation to butanol II (engineered) (4/6 steps found)
- 1-butanol autotrophic biosynthesis (engineered) (19/27 steps found)
KEGG Metabolic Maps
- 1- and 2-Methylnaphthalene degradation
- Benzoate degradation via CoA ligation
- Biosynthesis of plant hormones
- Biosynthesis of terpenoids and steroids
- Brassinosteroid biosynthesis
- Butanoate metabolism
- Caprolactam degradation
- Fatty acid metabolism
- Geraniol degradation
- Valine, leucine and isoleucine degradation
Isozymes
Compare fitness of predicted isozymes for: 1.3.8.7, 1.3.99.-, 1.3.99.2
Use Curated BLAST to search for 1.3.8.7 or 1.3.99.- or 1.3.99.2
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
See Q88LN6 at UniProt or InterPro
Protein Sequence (815 amino acids)
>PP_1893 medium-long chain acyl-CoA dehydrogenase (Pseudomonas putida KT2440) MLLLWLVVLVIGAAYLTHRRLAPLQILGIVAAYVLLMGIFSSAPGWLLALIWVVLALKIA LVALPQWRRKLFTAPVFRWFQRTLPPMSQTEREAIDAGTVWWDGELFSGRPDWRTLLAYP APKLTEEEQAFIDGPTEALCAMVSDWQIGQDLDLPPEAWAHIKQHGFFALIIPKEYGGKG FSAYAHSQVAMKLATRSGDLASTVMVPNSLGPAELLLHYGTDEQRNRYLPRLARGEEIPC FALTGPLAGSDAGAMPDTGIICKGQWQGEEVIGLRLNWEKRYITLGPVATLLGLAFKAYD PDHLLGEQEELGISLALIPTDTPGVEIGKRHLPLGAAFMNGPNSGKDVFVPLDFLIGGQA MLGKGWMMLMNCLSVGRSISLPAVGTGAAKYTSLVTGQYANIREQFNVPLAAFEGIQESL ARIGGNAWLMDSARLLTAKAVDLGEKPSVLSAILKYHLTERGRECIQHAMDVHGGKGIIM GPNNYLGRNWQGAPIFITVEGANILSRNLMIFGQGAIRCHPFVLKEMALAGREDHDQALK EFDDLLMKHILFAAGNAASTLVYGLGLGRFERVPGDALSQGYFRALNRQAAAFAMMADLS MMLLGGALKRRERLSARLGDVLSYLYLASAALKRYHDQGSPEYLQPLLRWAMEESLGQTE RALDRLLDNFPNRFVGCALRVLVFPFGRRHKGPGDELDAEVAELIGRRKGDPALEELLAG CYRPQAEHDPVADLQRASDLLEDTAQLSKALYQAVKEGKVQPAPGQSGIDAAVKAGVLQP DDGQRLHEAEQARRKVIDVDAFDKAQLLAVPGKVR