Protein Info for PP_3356 in Pseudomonas putida KT2440
Updated annotation (from data): p-coumarate CoA-ligase (EC 6.2.1.12)
Rationale: Specifically important in carbon source p-Coumaric acid. This is the first step in its catabolism.
Original annotation: feruloyl-CoA-synthetase
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
KEGG orthology group: K12508, feruloyl-CoA synthase [EC: 6.2.1.34] (inferred from 99% identity to ppf:Pput_2402)Predicted SEED Role
No annotation
MetaCyc Pathways
- 4-hydroxybenzoate biosynthesis III (plants) (5/5 steps found)
- ferulate degradation (3/3 steps found)
- 4-coumarate degradation (aerobic) (4/5 steps found)
- trans-caffeate degradation (aerobic) (3/4 steps found)
- umbelliferone biosynthesis (2/3 steps found)
- caffeoylglucarate biosynthesis (1/3 steps found)
- 4-coumarate degradation (anaerobic) (3/6 steps found)
- 6-gingerol analog biosynthesis (engineered) (3/6 steps found)
- hydroxycinnamate sugar acid ester biosynthesis (1/4 steps found)
- naringenin biosynthesis (engineered) (1/4 steps found)
- xanthohumol biosynthesis (1/4 steps found)
- chlorogenic acid biosynthesis II (1/5 steps found)
- flavonoid biosynthesis (1/5 steps found)
- phaselate biosynthesis (1/5 steps found)
- chlorogenic acid biosynthesis I (1/8 steps found)
- rosmarinic acid biosynthesis I (2/10 steps found)
- coumarins biosynthesis (engineered) (4/13 steps found)
- avenanthramide biosynthesis (1/9 steps found)
- curcuminoid biosynthesis (1/10 steps found)
- flavonoid di-C-glucosylation (3/15 steps found)
- superpathway of rosmarinic acid biosynthesis (2/14 steps found)
- monolignol biosynthesis (1/15 steps found)
- suberin monomers biosynthesis (4/20 steps found)
- Amaryllidacea alkaloids biosynthesis (3/26 steps found)
KEGG Metabolic Maps
- Biosynthesis of alkaloids derived from shikimate pathway
- Biosynthesis of phenylpropanoids
- Phenylpropanoid biosynthesis
- Ubiquinone and menaquinone biosynthesis
Isozymes
No predicted isozymesUse Curated BLAST to search for 6.2.1.12 or 6.2.1.34
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
See Q88HK0 at UniProt or InterPro
Protein Sequence (627 amino acids)
>PP_3356 p-coumarate CoA-ligase (EC 6.2.1.12) (Pseudomonas putida KT2440) MNNEARSGSTDPGQRPRYRQVAIGHPQVQVSHVDDVLRMQPVEPLAPLPARLLERLVHWA QVRPDTTFIAARQADGAWRSISYVQMLADVRTIAANLLGLGLSAERPLALLSGNDIEHLQ IALGAMYAGIAYCPVSPAYALLSQDFAKLRHVCEVLTPGVVFVSDSQPFQRAFEAVLDDS VGVISVRGQVAGRPHISFDSLLQPGDLAAADAAFAATGPDTIAKFLFTSGSTKLPKAVIT TQRMLCANQQMLLQTFPTFAEEPPVLVDWLPWNHTFGGSHNLGIVLYNGGSFYLDAGKPT PQGFAETLRNLREISPTAYLTVPKGWEELVKALEQDPALREVFFARIKLFFFAAAGLSQS VWDRLDRIAEQHCGERIRMMAGLGMTEASPSCTFTTGPLSMAGYVGLPAPGCEVKLVPVG DKLEARFRGPHIMPGYWRSPQQTAEAFDEEGFYCSGDALKLADARQPELGLMFDGRIAED FKLSSGVFVSVGPLRNRAVLEGSPYVQDIVVTAPDRECLGLLVFPRLPECRRLAGLAEDA SDARVLANDTVRSWFADWLERLNRDAQGNASRIEWLSLLAEPPSIDAGEITDKGSINQRA VLQRRAAQVEALYRGEDPDALHAKVRP