Protein Info for GFF4408 in Variovorax sp. SCN45

Annotation: 3-methylmercaptopropionyl-CoA ligase (EC 6.2.1.44) of DmdB2 type

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 13 to 395 (383 residues), 238.8 bits, E=9.1e-75
• PF13193: AMP-binding_C
  • amino acids 444 to 518 (75 residues), 58.4 bits, E=1.1e-19

Best Hits

Swiss-Prot: 62% identical to DMDB_RUEPO: 3-methylmercaptopropionyl-CoA ligase (dmdB) from Ruegeria pomeroyi (strain ATCC 700808 / DSM 15171 / DSS-3)

KEGG orthology group: K00666, fatty-acyl-CoA synthase [EC: 6.2.1.-] (inferred from 84% identity to pna:Pnap_4187)

MetaCyc: 62% identical to 3-methylmercaptopropionyl-CoA ligase (Ruegeria pomeroyi DSS-3)
RXN-12571 [EC: 6.2.1.44]

Predicted SEED Role

No annotation

MetaCyc Pathways

• methylthiopropanoate degradation I (cleavage) (2/6 steps found)
• superpathway of dimethylsulfoniopropanoate degradation (2/8 steps found)

KEGG Metabolic Maps

• Alkaloid biosynthesis II
• Benzoate degradation via CoA ligation
• Biosynthesis of plant hormones
• Caprolactam degradation
• Ethylbenzene degradation
• Geraniol degradation
• Limonene and pinene degradation
• Propanoate metabolism
• Tyrosine metabolism
• alpha-Linolenic acid metabolism

Isozymes

Compare fitness of predicted isozymes for: 6.2.1.-

Use Curated BLAST to search for 6.2.1.- or 6.2.1.44

Protein Sequence (541 amino acids)

>GFF4408 3-methylmercaptopropionyl-CoA ligase (EC 6.2.1.44) of DmdB2 type (Variovorax sp. SCN45)
MREPLLVSSLIAHAARYHADTPVVSVNTTGGIEHTTWGQVEINARRLSSALAKLGVQSGE
RCATIAWNNRRHLEIYYGVSGAGMVCHTVNPRLSAETLIYIVNHADDQVLFIDRTFLPIV
AKLRSALSTVKHVILMGPRDEEASGMLDGLRFYDEVVASGDADYPWPSIDEDLPSSLCYT
SGTTGHPKGVLYSHRSTVLHALAGNSPDGIGVSARDAVMPVVPMFHVNAWGVPYIAAAQG
AKLVLPGPNLDGPSLATLIDDEEVGLALGVPTIWMGLLAALRARGTKPKSLKRTIVGGAA
LPPSMFAAFRDEFGVELIHAWGMTETSPLGTLNQPLARHIHLDPQRQSEVRLGQGRPPYG
VQLRVVDDGGAVLPNDGKSPGKLQIRGHWIVSSYFGAESSALTSDGWFDTGDIATLDANG
YMVIRDRAKDIIKSGGEWISSVDIENIAIGHPAIANAAAIGVPHPKWDERPVLVAVKKEG
ANVSEADLLAFFKGRLPDWQIPDKAVFIDALPLSGTGKVFKNRLREAYGGLLAGSTREST
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