Protein Info for Psest_3841 in Pseudomonas stutzeri RCH2

Updated annotation (from data): D-lactate/glycolate dehydrogenase, FAD-linked subunit GlcD (EC 1.1.99.6; EC 1.1.99.14)
Rationale: Specifically important for: Sodium D-Lactate; Glycolic Acid. This is the first step in both D-lactate and glycolate oxidation.
Original annotation: glycolate oxidase, subunit GlcD

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 50 100 150 200 250 300 350 400 450 499 PF01565: FAD_binding_4" amino acids 56 to 194 (139 residues), 131.1 bits, see alignment E=2.4e-42 TIGR00387: glycolate oxidase, subunit GlcD" amino acids 59 to 470 (412 residues), 588.2 bits, see alignment E=4.1e-181 PF02913: FAD-oxidase_C" amino acids 230 to 470 (241 residues), 241.4 bits, see alignment E=1.2e-75

Best Hits

Swiss-Prot: 81% identical to GLCD_ECOL6: Glycolate oxidase subunit GlcD (glcD) from Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)

KEGG orthology group: K00104, glycolate oxidase [EC: 1.1.3.15] (inferred from 99% identity to psa:PST_0431)

MetaCyc: 81% identical to glycolate dehydrogenase, putative FAD-linked subunit (Escherichia coli K-12 substr. MG1655)
Glycolate dehydrogenase. [EC: 1.1.99.14]; 1.1.99.14 [EC: 1.1.99.14]

Predicted SEED Role

"Glycolate dehydrogenase (EC 1.1.99.14), subunit GlcD" in subsystem Glycolate, glyoxylate interconversions or Photorespiration (oxidative C2 cycle) (EC 1.1.99.14)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 1.1.99.14, 1.1.99.6

Use Curated BLAST to search for 1.1.3.15 or 1.1.99.14 or 1.1.99.6

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

See L0GQM8 at UniProt or InterPro

Protein Sequence (499 amino acids)

>Psest_3841 D-lactate/glycolate dehydrogenase, FAD-linked subunit GlcD (EC 1.1.99.6; EC 1.1.99.14) (Pseudomonas stutzeri RCH2)
MNILYDERVDGALPKVDKAALLAELQAQLPDLDILHRSEDLKPYECDGLSAYRTTPLLVV
LPERIEQVETLLKLCHQRGVPVVARGAGTGLSGGALPLEQGILLVMARFNKILEVDPAGR
FARVQPGVRNLAISQAAAPYELYYAPDPSSQIACSIGGNVAENAGGVHCLKYGLTVHNLL
KVDILTVEGERMTLGSDALDSPGFDLLALFTGSEGMLGIVTEVTVKLLPKPQVAKVLLAA
FDSVEKAGRAVGDIIAAGIIPGGLEMMDNLSIRAAEDFIHAGYPVDAEAILLCELDGVEA
DVHDDCARVSEVLKLAGATEVRLAKDEAERVRFWAGRKNAFPAVGRISPDYYCMDGTIPR
RELPGVLKGISDLSEQFGLRVANVFHAGDGNMHPLILFDANQPGELERAEDLGGKILELC
VKVGGSITGEHGVGREKINQMCSQFNADELTLFHAVKAAFDPSGLLNPGKNIPTLHRCAE
FGRMHIHNGQLPFPELERF