Protein Info for PS417_04210 in Pseudomonas simiae WCS417

Updated annotation (from data): Galactarate dehydratase (EC 4.2.1.42)
Rationale: Specifically important for utilizing D-Galacturonic Acid monohydrate. Automated validation from mutant phenotype: the predicted function (4.2.1.42) was linked to the condition via a SEED subsystem. This annotation was also checked manually.
Original annotation: galactarate dehydrogenase

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 50 100 150 200 250 300 350 400 450 517 TIGR03248: galactarate dehydratase" amino acids 12 to 517 (506 residues), 959 bits, see alignment E=2.4e-293 PF08666: SAF" amino acids 19 to 89 (71 residues), 32.9 bits, see alignment E=1.2e-11 PF04295: GD_AH_second" amino acids 119 to 263 (145 residues), 123.5 bits, see alignment E=1e-39 PF20629: GD_AH_C" amino acids 273 to 513 (241 residues), 309.6 bits, see alignment E=2.1e-96

Best Hits

Swiss-Prot: 63% identical to GARD_ECOLI: Galactarate dehydratase (L-threo-forming) (garD) from Escherichia coli (strain K12)

KEGG orthology group: K01708, galactarate dehydratase [EC: 4.2.1.42] (inferred from 99% identity to pfs:PFLU0852)

MetaCyc: 63% identical to GarD (Escherichia coli K-12 substr. MG1655)
Galactarate dehydratase. [EC: 4.2.1.42]

Predicted SEED Role

"D-galactarate dehydratase (EC 4.2.1.42)" in subsystem D-Galacturonate and D-Glucuronate Utilization or D-galactarate, D-glucarate and D-glycerate catabolism (EC 4.2.1.42)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

No predicted isozymes

Use Curated BLAST to search for 4.2.1.42

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 A0A1N7UFZ3 at UniProt or InterPro

Protein Sequence (517 amino acids)

>PS417_04210 Galactarate dehydratase (EC 4.2.1.42) (Pseudomonas simiae WCS417)
MQLIEHADSPRSIRLHERDNVVIVVNDQGVPAGTEFPDGLVTVDFIPQSHKVTLEDIPEG
GQIIRYGQTIGYALAPIPRGSWVQEDQLRMPTAPPLDSLPLSTEVPEAQAPLEGFTFEGY
RNADGTVGTRNILGITTTVQCVTGVLDHAVKRIKDELLPKYPHVDDVVALTHSYGCGVAI
TATDAYIPIRTVRNLARNPNLGGEALVISLGCEKLQAGQVMHDNDSSVDLSEPWLYRLQD
SSHGFTEMIEQIMALAETRLKKLDQRRRETVPASELILGMQCGGSDAFSGITANPALGYA
SDLLLRAGATVMFSEVTEVRDAIYLLTSRAENTQVAQELVREMDWYDRYLAKGEADRSAN
TTPGNKKGGLSNIVEKSLGSIVKSGSSAINGVLGPGERFKGKGLIFCATPASDFVCGTLQ
LAAGMNLHVFTTGRGTPYGLAMAPVVKVSTRTELAQRWPDLIDIDAGRIATGRATIEELG
WELFHFYLDVASGRKQTWAEHHKLHNDITLFNPAPIT