Protein Info for PS417_04195 in Pseudomonas simiae WCS417

Updated annotation (from data): 5-dehydro-4-deoxyglucarate dehydratase (EC 4.2.1.41)
Rationale: Specifically important for utilizing D-Galacturonic Acid monohydrate. Automated validation from mutant phenotype: the predicted function (4.2.1.41) was linked to the condition via a SEED subsystem. This annotation was also checked manually.
Original annotation: 5-dehydro-4-deoxyglucarate dehydratase

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

1 50 100 150 200 250 303 TIGR03249: 5-dehydro-4-deoxyglucarate dehydratase" amino acids 3 to 300 (298 residues), 442.8 bits, see alignment E=2.7e-137 PF00701: DHDPS" amino acids 12 to 299 (288 residues), 175.5 bits, see alignment E=5.3e-56

Best Hits

Swiss-Prot: 94% identical to KDGD_PSEPF: Probable 5-dehydro-4-deoxyglucarate dehydratase (Pfl01_0827) from Pseudomonas fluorescens (strain Pf0-1)

KEGG orthology group: K01707, 5-dehydro-4-deoxyglucarate dehydratase [EC: 4.2.1.41] (inferred from 98% identity to pfs:PFLU0849)

MetaCyc: 68% identical to 5-dehydro-4-deoxyglucarate dehydratase subunit (Acinetobacter baylyi ADP1)
5-dehydro-4-deoxyglucarate dehydratase. [EC: 4.2.1.41]

Predicted SEED Role

"5-dehydro-4-deoxyglucarate dehydratase (EC 4.2.1.41)" in subsystem D-Galacturonate and D-Glucuronate Utilization or D-galactarate, D-glucarate and D-glycerate catabolism (EC 4.2.1.41)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

No predicted isozymes

Use Curated BLAST to search for 4.2.1.41

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 A0A1N7U232 at UniProt or InterPro

Protein Sequence (303 amino acids)

>PS417_04195 5-dehydro-4-deoxyglucarate dehydratase (EC 4.2.1.41) (Pseudomonas simiae WCS417)
MNPQELKSILSHGLLSFPVTDFNAQGDFHQAGYIKRLEWLAPYGATALFAAGGTGEFFSL
AASEYSQVVKTAVDTCATSVPILAGVGGSTRQAIEYAQEAERLGAKGLLLLPHYLTEASQ
DGVAAHVEAVCKSVKIGVVVYNRNVCRLTAPLLERLAERCPNLIGYKDGLGDIELMVSIR
RRLGDRFSYLGGLPTAEVYAAAYKALGVPVYSSAVFNFIPKTAMDFYHAIAKDDHATVSK
IIDDFFLPYLDIRNRKAGYAVSIVKAGAKIVGYDAGPVRTPLTDLLPEEYEALAALIDKQ
GAQ