Protein Info for PS417_22065 in Pseudomonas simiae WCS417

Updated annotation (from data): Long-chain-fatty-acid--CoA ligase (EC 6.2.1.3)
Rationale: Specifically important for utilizing Sodium octanoate. Automated validation from mutant phenotype: the predicted function (ACYLCOASYN-RXN) was linked to the condition via a MetaCyc pathway. This annotation was also checked manually.
Original annotation: long-chain fatty acid--CoA ligase

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

• PF00501: AMP-binding
  • amino acids 31 to 419 (389 residues), 312.5 bits, E=3.8e-97
• PF13193: AMP-binding_C
  • amino acids 470 to 545 (76 residues), 67.4 bits, E=1.7e-22

Best Hits

Swiss-Prot: 55% identical to LCFA_SALTI: Long-chain-fatty-acid--CoA ligase (fadD) from Salmonella typhi

KEGG orthology group: K01897, long-chain acyl-CoA synthetase [EC: 6.2.1.3] (inferred from 98% identity to pfs:PFLU4829)

MetaCyc: 84% identical to long-chain-fatty-acid--CoA ligase (Pseudomonas aeruginosa PAO1)
Butyrate--CoA ligase. [EC: 6.2.1.2, 6.2.1.3]

Predicted SEED Role

"Long-chain-fatty-acid--CoA ligase (EC 6.2.1.3)" in subsystem Biotin biosynthesis or n-Phenylalkanoic acid degradation (EC 6.2.1.3)

MetaCyc Pathways

• superpathway of fatty acids biosynthesis (E. coli) (49/53 steps found)
• superpathway of fatty acid biosynthesis II (plant) (38/43 steps found)
• palmitate biosynthesis II (type II fatty acid synthase) (29/31 steps found)
• oleate β-oxidation (30/35 steps found)
• fatty acid salvage (6/6 steps found)
• 2-deoxy-D-ribose degradation II (7/8 steps found)
• 2-methyl-branched fatty acid β-oxidation (11/14 steps found)
• stearate biosynthesis II (bacteria and plants) (5/6 steps found)
• valproate β-oxidation (7/9 steps found)
• octane oxidation (4/5 steps found)
• long-chain fatty acid activation (1/1 steps found)
• palmitate biosynthesis III (21/29 steps found)
• phytol degradation (3/4 steps found)
• stearate biosynthesis IV (4/6 steps found)
• γ-linolenate biosynthesis II (animals) (1/2 steps found)
• linoleate biosynthesis II (animals) (1/2 steps found)
• alkane biosynthesis II (1/3 steps found)
• oleate biosynthesis I (plants) (1/3 steps found)
• 3-methyl-branched fatty acid α-oxidation (3/6 steps found)
• long chain fatty acid ester synthesis (engineered) (1/4 steps found)
• phosphatidylcholine acyl editing (1/4 steps found)
• wax esters biosynthesis II (1/4 steps found)
• 6-gingerol analog biosynthesis (engineered) (2/6 steps found)
• ceramide degradation by α-oxidation (2/7 steps found)
• sphingosine and sphingosine-1-phosphate metabolism (4/10 steps found)
• stearate biosynthesis I (animals) (1/6 steps found)
• arachidonate biosynthesis III (6-desaturase, mammals) (1/7 steps found)
• capsaicin biosynthesis (1/7 steps found)
• icosapentaenoate biosynthesis II (6-desaturase, mammals) (1/7 steps found)
• icosapentaenoate biosynthesis III (8-desaturase, mammals) (1/7 steps found)
• 4-oxopentanoate degradation (1/9 steps found)
• ceramide and sphingolipid recycling and degradation (yeast) (4/16 steps found)
• sporopollenin precursors biosynthesis (4/18 steps found)
• cutin biosynthesis (1/16 steps found)
• suberin monomers biosynthesis (2/20 steps found)

KEGG Metabolic Maps

• Butanoate metabolism
• Fatty acid metabolism

Isozymes

Compare fitness of predicted isozymes for: 6.2.1.3

Use Curated BLAST to search for 6.2.1.2 or 6.2.1.3

Sequence Analysis Tools

See A0A1N7U5P1 at UniProt or InterPro

Protein Sequence (563 amino acids)

>PS417_22065 Long-chain-fatty-acid--CoA ligase (EC 6.2.1.3) (Pseudomonas simiae WCS417)
MNEDFWKDKYPAGIAAEINPDEYPNIQAVLKQSCQRFANKPAFSNLGKTITYGELYELSG
AFAAYLQQHTDLKPGDRIAVQLPNVLQYPVAVFGAIRAGLIVVNTNPLYTAREMEHQFND
SGAKALVCLANMAHLAEKVVPKTAVKHVIVTEVADLLPPLKRLLINSVIKYVKKMVPAYH
LPNAIKFNDVLAKGHGQPVSDASPTSSDVAVLQYTGGTTGVAKGAMLTHRNLVANMLQCK
ALMGSNLNEGCEILITPLPLYHIYAFTFHCMAMMLIGNHNILISNPRDLPAMVKELSKWK
FSGFVGLNTLFVALCNNEAFRKLDFSALKVTLSGGMALQLAAAERWKAVTGCGICEGYGM
TETSPVATVNPIQHIQIGTIGIPVPSTVCKVIADDGTELALGETGELCVKGPQVMKGYWQ
RQDATDEMLDSEGWLKTGDIAIIQPDGYMRIVDRKKDMILVSGFNVYPNELEDVLAGLPG
VLQCAAIGVPDEKSGEHIKLFIVVKPGATLTKEQVMEHMRANVTAYKVPKAVEFRDALPT
TNVGKILRRELRDEELKKLGLKK