Protein Info for BPHYT_RS22715 in Burkholderia phytofirmans PsJN
Updated annotation (from data): L-2-keto-3-deoxyarabonate dehydratase (EC 4.2.1.43)
Rationale: important for L-arabinose utilization and 70% similar to araD from A. brasilense (KDADA_AZOBR, PMID:16950779). SEED_correct
Original annotation: cytochrome C biogenesis protein CcdA
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: 70% identical to KDADA_AZOBR: L-2-keto-3-deoxyarabonate dehydratase (araD) from Azospirillum brasilense
KEGG orthology group: K01714, dihydrodipicolinate synthase [EC: 4.2.1.52] (inferred from 100% identity to bpy:Bphyt_4575)Predicted SEED Role
"L-2-keto-3-deoxyarabonate dehydratase (EC 4.2.1.43)" in subsystem L-Arabinose utilization (EC 4.2.1.43)
MetaCyc Pathways
- L-arabinose degradation III (5/6 steps found)
- L-lyxonate degradation (2/3 steps found)
- superpathway of pentose and pentitol degradation (22/42 steps found)
KEGG Metabolic Maps
- Ascorbate and aldarate metabolism
- Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
- Lysine biosynthesis
Isozymes
Compare fitness of predicted isozymes for: 4.2.1.52
Use Curated BLAST to search for 4.2.1.43 or 4.2.1.52
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 B2TD34 at UniProt or InterPro
Protein Sequence (310 amino acids)
>BPHYT_RS22715 L-2-keto-3-deoxyarabonate dehydratase (EC 4.2.1.43) (Burkholderia phytofirmans PsJN) MTQSSHPAAMRGVFPVAPTIFDDAGRLDLEGQKRCIDFMIDAGSNGLCILANFSEQFALS DDERNTLMHVVLEHVAGRVPVIVTTTHFSSYQCAERSRSAQAAGAAMVMVMPPYHGATIR IGERGIYEFYRTVSDAIGIPIMIQDAPVSGTPLSAPFLARMAREIDNVSYFKIEVPQAAN KLRELIELGGDAIVGPWDGEEAITLMADLDAGATGSMTGGGYADGIRLIVDAYAAGDTEA AAAHYQQWLPLINYENRQGGLASCKALMKEGGVIRSDAVRHPLPQMHPATREGLLKVARR LDPLVLRWGR