Protein Info for HER17_RS04070 in Pectobacterium carotovorum WPP14

Annotation: galactarate 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 50 100 150 200 250 300 350 400 450 524 TIGR03248: galactarate dehydratase" amino acids 15 to 524 (510 residues), 944.7 bits, see alignment E=5.3e-289 PF08666: SAF" amino acids 23 to 92 (70 residues), 40.7 bits, see alignment E=4.4e-14 PF04295: GD_AH_second" amino acids 123 to 271 (149 residues), 122.3 bits, see alignment E=2.4e-39 PF20629: GD_AH_C" amino acids 280 to 520 (241 residues), 310 bits, see alignment E=1.5e-96

Best Hits

Swiss-Prot: 86% 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 98% identity to pwa:Pecwa_3558)

MetaCyc: 86% 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)

Search 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

Find the best match in UniProt

Protein Sequence (524 amino acids)

>HER17_RS04070 galactarate dehydratase (Pectobacterium carotovorum WPP14)
MSDKSESNAAQEQPLYIKVHDSDNVAIVVNNNGLRAGTRFNDDLELIEHVPQGHKVALVD
IAKSGAIIRYGEIIGYALRDIAKGSWIDESLVELPQAPALETLPLATKVPPALPALEGYT
FEGYRNADGSVGTKNLLGISTSVHCVAGVVDYVVKIIERDLLPRYPNVDGVVALNHLYGC
GVAINAPAAVVPIRTIHNLALNPNFGGEILVVGLGCEKLQPERLLEGTSDVQAISLDDTS
IVRLQDEHHVGFRSMVDDILTMADKHLQRLNKRQRETCPASELVVGMQCGGSDAFSGVTA
NPAVGFASDLLVRCGATVMFSEVTEVRDAIHLLTPRVINEEVGKRLLEEMAWYDNYLDSG
QTDRSANPSPGNKKGGLANVVEKALGSIAKSGTSAIVEVLSPGQRPTKRGLIYAATPASD
FVCGTQQLASGITVQVFTTGRGTPYGLLAVPVIKMATRTALANRWHDLMDIDAGTIATGE
ATIEDVGWQLFHFILDIASGKKKTWSDQWGLHNALAVFNPAPVT