Protein Info for Atu3402 in Agrobacterium fabrum C58
Annotation: 3-isopropylmalate dehydrogenase
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
Best Hits
Swiss-Prot: 51% identical to TTUC_BACSU: Probable tartrate dehydrogenase/decarboxylase (ycsA) from Bacillus subtilis (strain 168)
KEGG orthology group: K07246, tartrate dehydrogenase/decarboxylase / D-malate dehydrogenase [EC: 1.1.1.83 1.1.1.93 4.1.1.73] (inferred from 100% identity to atu:Atu3402)MetaCyc: 54% identical to D-malate/3-isopropylmalate dehydrogenase (decarboxylating) (Escherichia coli K-12 substr. MG1655)
Tartrate dehydrogenase. [EC: 1.1.1.93, 4.1.1.73]; 3-isopropylmalate dehydrogenase. [EC: 1.1.1.93, 4.1.1.73, 1.1.1.85]; D-malate dehydrogenase (decarboxylating). [EC: 1.1.1.93, 4.1.1.73, 1.1.1.85, 1.1.1.83]
Predicted SEED Role
No annotation
MetaCyc Pathways
- superpathway of branched chain amino acid biosynthesis (17/17 steps found)
- L-leucine biosynthesis (6/6 steps found)
- 3-methylbutanol biosynthesis (engineered) (6/7 steps found)
- D-malate degradation (1/1 steps found)
- methylgallate degradation (3/6 steps found)
- protocatechuate degradation I (meta-cleavage pathway) (4/8 steps found)
- gentisate degradation II (1/4 steps found)
- superpathway of vanillin and vanillate degradation (5/10 steps found)
- butanol and isobutanol biosynthesis (engineered) (3/8 steps found)
- syringate degradation (4/12 steps found)
- aliphatic glucosinolate biosynthesis, side chain elongation cycle (10/30 steps found)
KEGG Metabolic Maps
- Biosynthesis of alkaloids derived from histidine and purine
- Butanoate metabolism
- Glyoxylate and dicarboxylate metabolism
- Valine, leucine and isoleucine biosynthesis
Isozymes
Compare fitness of predicted isozymes for: 1.1.1.85
Use Curated BLAST to search for 1.1.1.83 or 1.1.1.85 or 1.1.1.93 or 4.1.1.73
Sequence Analysis Tools
PaperBLAST (search for papers about homologs of this protein)
Search CDD (the Conserved Domains Database, which includes COG and superfam)
Predict protein localization: PSORTb (Gram-negative bacteria)
Predict transmembrane helices and signal peptides: Phobius
Check the current SEED with FIGfam search
Find homologs in fast.genomics or the ENIGMA genome browser
See Q7CSD5 at UniProt or InterPro
Protein Sequence (347 amino acids)
>Atu3402 3-isopropylmalate dehydrogenase (Agrobacterium fabrum C58) MKTHRIALIPGDGIGQSVTDAAWQVLNAVAKTSGFVLEGTEFPWSCAFYKETGAMMPKDG IETLRGFDAIMLGAVGWPAEVPDSVSLHGLLLPIRKAFVQYANIRPHRLLSGVQGPLKAD GFDILCIRENTEGEYSGAGGRVHQGTEDEVAVETSIFTRKGVERILRFGFEQAQKRRGKL ASITKSNAQKYSMVFWDEVTHKLAAEYPDVEVSSYHIDAMAARMVMAPESLDVVVASNLF GDILTDLGAAIQGGLGFAASANINPDRSAPSMFEPVHGSAPDIAHLGIANPIAAIWSGAM MFEHLGEKDAAAKIMAALETATGRGIGTVPGKDKTDTITAAVLAALA