Protein Info for HSERO_RS06870 in Herbaspirillum seropedicae SmR1

Updated annotation (from data): L-2-keto-3-deoxyarabonate dehydratase (EC 4.2.1.43)
Rationale: Specifically important for utilizing L-Arabinose. Automated validation from mutant phenotype: the predicted function (4.2.1.43-RXN) was linked to the condition via a MetaCyc pathway. This annotation was also checked manually.
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

• PF00701: DHDPS
  • amino acids 7 to 290 (284 residues), 109.6 bits, E=6.2e-36

Best Hits

Swiss-Prot: 71% 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 hse:Hsero_1368)

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 (19/42 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

See D8IP64 at UniProt or InterPro

Protein Sequence (306 amino acids)

>HSERO_RS06870 L-2-keto-3-deoxyarabonate dehydratase (EC 4.2.1.43) (Herbaspirillum seropedicae SmR1)
MSTPLYRGVFPVAPTIFDANGKLDLEGQKRAIDFMIDAGSNGLCILANFSEQFVLSDEER
VQVQNTVLEHVAGRVPVIVTTTHYGSQICAERSRAAQDAGAAMVMVMPPYHGATFRVPEK
QIYEFYKHVSDAIDIPIMIQDAPVAGTPLSAPFLARMAKEIEQVSYFKIETAGAASKLRD
LIELGGDAVVGPWDGEEAITLIPDLDAGATGAMTGGGYPDGIRKIVDAYFAGDIEKAAEL
YMQWLPLINYENRQCGLSACKALMLEGGVIKSDMLRHPQPPLHPKVREGLLRVARRLDPL
VLSWGR