Protein Info for DvMF_0011 in Desulfovibrio vulgaris Miyazaki F

Updated annotation (from data): L-serine ammonia-lyase (EC 4.3.1.17)
Rationale: Specifically important for utilizing L-Serine. Automated validation from mutant phenotype: the predicted function (4.3.1.17) was linked to the condition via a SEED subsystem. This annotation was also checked manually.
Original annotation: serine dehydratase alpha chain (RefSeq)

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

• TIGR00720: L-serine ammonia-lyase
  • amino acids 11 to 456 (446 residues), 437.4 bits, E=3.3e-135
• PF03315: SDH_beta
  • amino acids 11 to 163 (153 residues), 131.9 bits, E=2.6e-42
• PF03313: SDH_alpha
  • amino acids 189 to 453 (265 residues), 245.4 bits, E=8.3e-77

Best Hits

KEGG orthology group: K01752, L-serine dehydratase [EC: 4.3.1.17] (inferred from 100% identity to dvm:DvMF_0011)

Predicted SEED Role

"L-serine dehydratase, beta subunit (EC 4.3.1.17) / L-serine dehydratase, alpha subunit (EC 4.3.1.17)" in subsystem Glycine and Serine Utilization or Pyruvate Alanine Serine Interconversions (EC 4.3.1.17)

MetaCyc Pathways

• superpathway of L-lysine, L-threonine and L-methionine biosynthesis II (13/15 steps found)
• L-serine degradation (3/3 steps found)
• D-serine degradation (2/3 steps found)
• L-cysteine degradation II (2/3 steps found)
• L-tryptophan degradation II (via pyruvate) (2/3 steps found)
• glycine degradation (2/3 steps found)
• L-methionine biosynthesis II (4/6 steps found)
• glycine betaine degradation III (4/7 steps found)
• purine nucleobases degradation II (anaerobic) (16/24 steps found)
• felinine and 3-methyl-3-sulfanylbutan-1-ol biosynthesis (2/5 steps found)
• L-mimosine degradation (4/8 steps found)
• glycine betaine degradation I (4/8 steps found)
• glutathione-mediated detoxification I (2/8 steps found)

KEGG Metabolic Maps

• Cysteine metabolism
• Glycine, serine and threonine metabolism

Isozymes

No predicted isozymes

Use Curated BLAST to search for 4.3.1.17

Sequence Analysis Tools

See B8DN29 at UniProt or InterPro

Protein Sequence (459 amino acids)

>DvMF_0011 L-serine ammonia-lyase (EC 4.3.1.17) (Desulfovibrio vulgaris Miyazaki F)
MQPLVATIETSLFDMFEAGPGPSSSHTIGPMKAGHDFRTLCAALPPEVLACAADIRVRLF
GSLSATGVGHGTTGAVLAGLLGHRPATCPPGLLESLPALPEGERTLRLGPAALVLAEGTV
RRDAVQHAYPFSNTLVMELLDAHGAVLCEREYYSVGGGFIQWKGWQPEERGRPAHPYRSM
AQLRARLVETGLTIHELILENEMAVTGMGRAAILDRLAAIIELMEASVRRGIEDGGPLPG
TLGVHRKARVLLMRAQRLPNEVDVFLGRLNAYAFAAAEENAAGGVIVTAPTCGAAGVMPA
LLYAMRHDLAIGDRAVREGVLASAAVGFLAKHNAGIAGAEVGCQGEVGVASAMAAAMLAH
ARGNPVHVVENAAEIALEHHLGLTCDPVGGYVQIPCIERNAVGAVKAYNACLLATCEDPR
HHRVTLDSVIAAMAEIGRDMNAKFKETSSGGLAVSVVEC