Protein Info for HMPREF1078_RS16655 in Parabacteroides merdae CL09T00C40

Annotation: 3-isopropylmalate dehydratase small subunit

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

• TIGR00171: 3-isopropylmalate dehydratase, small subunit
  • amino acids 4 to 188 (185 residues), 189.1 bits, E=3.6e-60
• PF00694: Aconitase_C
  • amino acids 4 to 123 (120 residues), 108.9 bits, E=1.2e-35

Best Hits

Swiss-Prot: 67% identical to LEUD_AZOPC: 3-isopropylmalate dehydratase small subunit (leuD) from Azobacteroides pseudotrichonymphae genomovar. CFP2

KEGG orthology group: K01704, 3-isopropylmalate/(R)-2-methylmalate dehydratase small subunit [EC: 4.2.1.33 4.2.1.35] (inferred from 91% identity to pdi:BDI_2062)

MetaCyc: 46% identical to 3-isopropylmalate dehydratase subunit LeuD (Escherichia coli K-12 substr. MG1655)
3-isopropylmalate dehydratase. [EC: 4.2.1.33]

Predicted SEED Role

"3-isopropylmalate dehydratase small subunit (EC 4.2.1.33)" in subsystem Branched-Chain Amino Acid Biosynthesis or Leucine Biosynthesis (EC 4.2.1.33)

MetaCyc Pathways

• superpathway of branched chain amino acid biosynthesis (16/17 steps found)
• L-leucine biosynthesis (6/6 steps found)
• 3-methylbutanol biosynthesis (engineered) (5/7 steps found)
• L-isoleucine biosynthesis II (5/8 steps found)
• 2,5-xylenol and 3,5-xylenol degradation (1/13 steps found)

KEGG Metabolic Maps

• Biosynthesis of alkaloids derived from histidine and purine
• C5-Branched dibasic acid metabolism
• Valine, leucine and isoleucine biosynthesis

Isozymes

Compare fitness of predicted isozymes for: 4.2.1.33, 4.2.1.35

Use Curated BLAST to search for 4.2.1.33 or 4.2.1.35

Protein Sequence (195 amino acids)

>HMPREF1078_RS16655 3-isopropylmalate dehydratase small subunit (Parabacteroides merdae CL09T00C40)
MKQKFNIITSTCVPLPLENVDTDQIIPARFLKATDKKGFGENLFRDWRYDKQGNKIESFV
LNDPTYGGQILVAGKNFGSGSSREHAAWAIADYGFRVVVSSFFADIHKNNELNNFVLPVV
VSEPFLAELFDSIFADPKTEVEVNLPAQTITNKATGKSEHFDINAYKKDCLVNGLDDIDY
LLSNKEKIEAFERRR