Protein Info for HSERO_RS16505 in Herbaspirillum seropedicae SmR1
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
Best Hits
Swiss-Prot: 80% identical to LEUD_PARP8: 3-isopropylmalate dehydratase small subunit (leuD) from Paraburkholderia phymatum (strain DSM 17167 / CIP 108236 / LMG 21445 / STM815)
KEGG orthology group: K01704, 3-isopropylmalate/(R)-2-methylmalate dehydratase small subunit [EC: 4.2.1.33 4.2.1.35] (inferred from 100% identity to hse:Hsero_3298)MetaCyc: 60% identical to maleate hydratase small subunit (Pseudomonas alcaligenes NCIMB 9867)
Maleate hydratase. [EC: 4.2.1.31]
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 (17/17 steps found)
- L-leucine biosynthesis (6/6 steps found)
- 3-methylbutanol biosynthesis (engineered) (6/7 steps found)
- L-isoleucine biosynthesis II (6/8 steps found)
- gentisate degradation II (2/4 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
- Butanoate metabolism
- 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 4.2.1.31 or 4.2.1.33 or 4.2.1.35
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 D8J1Z6 at UniProt or InterPro
Protein Sequence (215 amino acids)
>HSERO_RS16505 3-isopropylmalate dehydratase small subunit (Herbaspirillum seropedicae SmR1) MNKFIVHEGLVAPLDRANVDTDAIIPKQFLKSIKRSGFGPNLFDEWRYLDHGEPGMDNSK RPLNPDFVLNQERYQGSSILLSRKNFGCGSSREHAPWALDQFGFRAVIAPSFADIFFNNC YKNGLLPIVLTEQQVDHLFNEVKAFPGYRLVIDLEKQIVSTTNGSQTYPFEISEFRKYCL LNGFDDIGLTLRKADTIRAYEEKHLHEQPWLSNTI