Protein Info for PP_1988 in Pseudomonas putida KT2440

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: 100% identical to LEU3_PSEPK: 3-isopropylmalate dehydrogenase (leuB) from Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)

KEGG orthology group: K00052, 3-isopropylmalate dehydrogenase [EC: 1.1.1.85] (inferred from 100% identity to ppg:PputGB1_1519)

MetaCyc: 58% identical to isopropylmalate dehydrogenase 3 (Arabidopsis thaliana col)
3-isopropylmalate dehydrogenase. [EC: 1.1.1.85]; 1.1.1.85 [EC: 1.1.1.85]; 1.1.1.85 [EC: 1.1.1.85]; 1.1.1.85 [EC: 1.1.1.85]; 1.1.1.85 [EC: 1.1.1.85]; 1.1.1.85 [EC: 1.1.1.85]

Predicted SEED Role

"3-isopropylmalate dehydrogenase (EC 1.1.1.85)" in subsystem Branched-Chain Amino Acid Biosynthesis or Leucine Biosynthesis (EC 1.1.1.85)

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)
butanol and isobutanol biosynthesis (engineered) (3/8 steps found)
aliphatic glucosinolate biosynthesis, side chain elongation cycle (10/30 steps found)

KEGG Metabolic Maps

Isozymes

No predicted isozymes

Use Curated BLAST to search for 1.1.1.85

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search structures

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 Q88LE5 at UniProt or InterPro

Protein Sequence (360 amino acids)

>PP_1988 3-isopropylmalate dehydrogenase (Pseudomonas putida KT2440)
MSKQILILPGDGIGPEIMAEAVKVLELANDKFQLGFSLAHDVIGGAAIDKHGVPLADETL
ERARKADAVLLGAVGGPKWDKIERDIRPERGLLKIRSQLGLFANLRPAILYPQLADASSL
KPEIVSGLDILIVRELTGGIYFGAPRGQRELEGGERQAYDTLPYSESEVRRIARVGFDMA
RVRGKKLCSVDKANVLASSQLWREVVEDVAKDYPDVELSHMYVDNAAMQLVRAPKQFDVM
VTDNMFGDILSDEASMLTGSIGMLPSASLDADNKGMYEPCHGSAPDIAGLGIANPLATIL
SVSMMLRYSFNQSAAAEAIEKAVSLVLDQGLRTGDIFSEGCRKVGTQEMGDAVVAALRNL