Protein Info for Dshi_0888 in Dinoroseobacter shibae DFL-12

Annotation: Pyridoxal-5'-phosphate-dependent protein beta subunit (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

• PF00291: PALP
  • amino acids 23 to 311 (289 residues), 256.4 bits, E=1.9e-80

Best Hits

Swiss-Prot: 47% identical to SRR_DICDI: Probable serine racemase (srr) from Dictyostelium discoideum

KEGG orthology group: K01754, threonine dehydratase [EC: 4.3.1.19] (inferred from 100% identity to dsh:Dshi_0888)

MetaCyc: 51% identical to serine racemase/D-serine ammonia-lyase (Arabidopsis thaliana col)
Amino-acid racemase. [EC: 5.1.1.10, 5.1.1.18]; D-serine ammonia-lyase. [EC: 5.1.1.10, 5.1.1.18, 4.3.1.18]

Predicted SEED Role

"Threonine dehydratase, catabolic (EC 4.3.1.19)" in subsystem Branched-Chain Amino Acid Biosynthesis or Glycine and Serine Utilization or Threonine anaerobic catabolism gene cluster or Threonine degradation (EC 4.3.1.19)

MetaCyc Pathways

• superpathway of branched chain amino acid biosynthesis (17/17 steps found)
• superpathway of L-isoleucine biosynthesis I (13/13 steps found)
• superpathway of L-lysine, L-threonine and L-methionine biosynthesis II (13/15 steps found)
• L-isoleucine biosynthesis I (from threonine) (7/7 steps found)
• glycine betaine degradation I (7/8 steps found)
• D-serine degradation (3/3 steps found)
• L-cysteine degradation II (3/3 steps found)
• L-serine degradation (3/3 steps found)
• L-methionine biosynthesis II (5/6 steps found)
• L-threonine degradation I (5/6 steps found)
• alanine racemization (1/1 steps found)
• serine racemization (1/1 steps found)
• L-methionine degradation II (2/3 steps found)
• L-tryptophan degradation II (via pyruvate) (2/3 steps found)
• vancomycin resistance II (2/3 steps found)
• L-alanine degradation I (1/2 steps found)
• L-threonine degradation V (1/2 steps found)
• superpathway of L-threonine metabolism (12/18 steps found)
• anaerobic energy metabolism (invertebrates, cytosol) (4/7 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)
• superpathway of anaerobic energy metabolism (invertebrates) (10/17 steps found)
• L-arginine degradation XIV (oxidative Stickland reaction) (2/6 steps found)
• glutathione-mediated detoxification I (3/8 steps found)
• ansatrienin biosynthesis (1/9 steps found)
• hypoglycin biosynthesis (4/14 steps found)
• cyclosporin A biosynthesis (2/15 steps found)
• superpathway of L-lysine degradation (9/43 steps found)

KEGG Metabolic Maps

• Cysteine metabolism
• D-Arginine and D-ornithine metabolism
• D-Glutamine and D-glutamate metabolism
• Glycine, serine and threonine metabolism
• Valine, leucine and isoleucine biosynthesis

Isozymes

Compare fitness of predicted isozymes for: 4.3.1.19

Use Curated BLAST to search for 4.3.1.18 or 4.3.1.19 or 5.1.1.10 or 5.1.1.18

Sequence Analysis Tools

See A8LRI3 at UniProt or InterPro

Protein Sequence (324 amino acids)

>Dshi_0888 Pyridoxal-5'-phosphate-dependent protein beta subunit (RefSeq) (Dinoroseobacter shibae DFL-12)
MKDTIDPAVIPTYDDVVAAHERIKPHIHRTPVLTSSYFNDLVGAELFFKCENFQKAGAFK
VRGACNAVFGLSDALAERGVATHSSGNHALSLSYAAGRRGIPCNVVMPRTAPEAKKAAVR
GYGGIITECEPSTTSREAVFAEVQERTGAEFVHPYNDPRVVAGQGTCSREFMEQTDGLDM
MIAPIGGGGMISGCCLTLSNIAPEVQIIAAEPEQADDAYRSFKAGHIIADDAPVTIADGL
KVPLKDLTWHFVSNHVSDILTASEQEIIDAMKLTWQRMKIVMEPSCAVPLATILKNKDKF
AGKRVGVIVTGGNVDLDKLPWITG