Protein Info for PGA1_c07380 in Phaeobacter inhibens DSM 17395
Annotation: dihydroxy-acid dehydratase IlvD
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: 59% identical to ARADA_AZOBR: L-arabonate dehydratase (araC) from Azospirillum brasilense
KEGG orthology group: K01687, dihydroxy-acid dehydratase [EC: 4.2.1.9] (inferred from 89% identity to sit:TM1040_3487)Predicted SEED Role
"Galactonate dehydratase (EC 4.2.1.6)" in subsystem D-galactonate catabolism (EC 4.2.1.6)
MetaCyc Pathways
- superpathway of branched chain amino acid biosynthesis (17/17 steps found)
- superpathway of L-isoleucine biosynthesis I (12/13 steps found)
- superpathway of L-threonine metabolism (15/18 steps found)
- L-isoleucine biosynthesis I (from threonine) (7/7 steps found)
- L-valine biosynthesis (4/4 steps found)
- D-galactonate degradation (3/3 steps found)
- pyruvate fermentation to isobutanol (engineered) (4/5 steps found)
- L-isoleucine biosynthesis IV (4/6 steps found)
- L-isoleucine biosynthesis II (5/8 steps found)
- L-isoleucine biosynthesis III (4/7 steps found)
KEGG Metabolic Maps
- Biosynthesis of alkaloids derived from histidine and purine
- Galactose metabolism
- Pantothenate and CoA biosynthesis
- Valine, leucine and isoleucine biosynthesis
Isozymes
Compare fitness of predicted isozymes for: 4.2.1.9
Use Curated BLAST to search for 4.2.1.6 or 4.2.1.9
Sequence Analysis Tools
PaperBLAST (search for papers about homologs of this protein)
Search CDD (the Conserved Domains Database, which includes COG and superfam)
Compare to protein 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 I7DMW8 at UniProt or InterPro
Protein Sequence (571 amino acids)
>PGA1_c07380 dihydroxy-acid dehydratase IlvD (Phaeobacter inhibens DSM 17395) MTKDRRNRAWYGKLDKDGFIHRSWMKNQGFPDHAFDGRPIIGICNTWSELTPCNSGLRDL AEGVKRGVWEAGGFPVEFPVMSLGETQMKPTAMLFRNLLAMDVEESIRAYGIDGVVLLGG CDKTTPGQLMGAASVDLPAIVVSSGPMLNGKWQGKDIGSGTDVWKFSEAVRAGEMTLQDF MAAESGMSRSKGVCMTMGTASTMASLVEAMGMSLPTNAALPAVDARRMALAHLTGKRIVE MVEEDIKPSDVLTREAFVNAIMANAAVGGSTNAVVHLLALAGRVGAELSLDDFDLGSDIP LLVNCMPSGKYLMEDFCYAGGMPVVLKQLADNGHLRSNTTVLGGDILAYAEGAECFNDDV IKSFDEPVKPAAGLRVLRGNLAPNGAIVKPSAATDHLLEHEGVAHVFETIEDMKANIDRD DLPVTKDSILVLKGVGPKGYPGMPEVGNMPIPRKLVREGVRDMIRISDGRMSGTAFGTVI LHVSPESQAGGPLGLVQTGDRIRVSAKNGTLDLLVSEEELTARREAWQPEPLHYTRGYAK LYVDSVLQAEKGADLDFLVGKDTRPVTRESH