Protein Info for DVU3027 in Desulfovibrio vulgaris Hildenborough JW710

Name: glcD
Annotation: glycolate oxidase, subunit GlcD (TIGR)

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

• PF01565: FAD_binding_4
  • amino acids 41 to 180 (140 residues), 128.9 bits, E=1.2e-41
• PF02913: FAD-oxidase_C
  • amino acids 218 to 458 (241 residues), 253.6 bits, E=2.4e-79

Best Hits

Swiss-Prot: 48% identical to GLCD_BACSU: Glycolate oxidase subunit GlcD (glcD) from Bacillus subtilis (strain 168)

KEGG orthology group: K00104, glycolate oxidase [EC: 1.1.3.15] (inferred from 100% identity to dvl:Dvul_0346)

MetaCyc: 100% identical to quinone-dependent D-lactate dehydrogenase catalytic subunit (Desulfovibrio vulgaris)
D-lactate dehydrogenase (cytochrome c-553). [EC: 1.1.2.5]

Predicted SEED Role

"Predicted glycolate dehydrogenase, 2-subunit type (EC 1.1.99.14), iron-sulfur subunit GlcD" (EC 1.1.99.14)

MetaCyc Pathways

• lactate fermentation to acetate, CO₂ and hydrogen (Desulfovibrionales) (7/8 steps found)
• glycolate and glyoxylate degradation II (2/2 steps found)
• photorespiration I (6/9 steps found)
• photorespiration III (6/9 steps found)
• glycolate and glyoxylate degradation III (1/3 steps found)
• photorespiration II (6/10 steps found)
• glycolate and glyoxylate degradation I (1/4 steps found)
• superpathway of glycol metabolism and degradation (2/7 steps found)

KEGG Metabolic Maps

• Glyoxylate and dicarboxylate metabolism
• Pyruvate metabolism

Isozymes

Compare fitness of predicted isozymes for: 1.1.3.15, 1.1.99.14

Use Curated BLAST to search for 1.1.2.5 or 1.1.3.15 or 1.1.99.14

Sequence Analysis Tools

See Q726S9 at UniProt or InterPro

Protein Sequence (461 amino acids)

>DVU3027 glycolate oxidase, subunit GlcD (TIGR) (Desulfovibrio vulgaris Hildenborough JW710)
MPSASLIKEFEAIIGKENVFTSEPDRQSYAYDSAVLDQVVPALVLRPTETEQLGKLVKLC
YENDHPITVRGAGTNLSGGTIPDKREGIVILTNSLNKIIEINEQDLYAVVEPGVVTAKFA
AEVAKRGLFYPPDPGSQAVSTLGGNVAENAGGLRGLKYGVTKDYVMGIEFFDVNGGLVKT
GSRTVKCVTGYNLAGLMAASEGTLGVFSQITLKLVPPPKASKAMMAVFDDVNKASEAVAA
IIAAHVVPCTLEFMDKSSINYVEDFTKAGLPREAAAILLIEVDGHPAQVEDDAATVVKAL
NASGATEVHVAKDAAEKFKLWEARRNALPALARARATTVLEDATVPRSQIPAMVKAINDI
AKKHNIAIGTFGHAGDGNLHPTILCDRRDKHEFERVESAVDEIFDVALSLHGTLSGEHGI
GLAKSKWMEKETSKATIEYSRNMKRAIDPKYILNPGKIIGA