Protein Info for Atu5333 in Agrobacterium fabrum C58

Annotation: 2-hydroxyacid 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

Best Hits

Swiss-Prot: 54% identical to DHGY_METEA: Glycerate dehydrogenase (hprA) from Methylobacterium extorquens (strain ATCC 14718 / DSM 1338 / JCM 2805 / NCIMB 9133 / AM1)

KEGG orthology group: K00018, glycerate dehydrogenase [EC: 1.1.1.29] (inferred from 100% identity to atu:Atu5333)

MetaCyc: 54% identical to hydroxypyruvate reductase subunit (Methylorubrum extorquens AM1)
Hydroxypyruvate reductase. [EC: 1.1.1.81]; 1.1.1.81 [EC: 1.1.1.81]

Predicted SEED Role

"Hydroxypyruvate reductase (EC 1.1.1.81)" in subsystem Glycolate, glyoxylate interconversions or Photorespiration (oxidative C2 cycle) (EC 1.1.1.81)

MetaCyc Pathways

photorespiration I (6/9 steps found)
photorespiration III (6/9 steps found)
photorespiration II (6/10 steps found)
L-serine biosynthesis II (1/4 steps found)
D-xylose degradation IV (3/7 steps found)
L-arabinose degradation IV (3/8 steps found)
formaldehyde assimilation I (serine pathway) (5/13 steps found)
superpathway of pentose and pentitol degradation (16/42 steps found)

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 1.1.1.81

Use Curated BLAST to search for 1.1.1.29 or 1.1.1.81

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 Q7D3C1 at UniProt or InterPro

Protein Sequence (326 amino acids)

>Atu5333 2-hydroxyacid dehydrogenase (Agrobacterium fabrum C58)
MSDAASKPLRVVLLDRKTLPDDIRFRAFSFANELVAFDQTAPDEVSERIKDADIVITNKA
PVRGPAIASAPRLKLVAVAATGTDVVDVAACAQRGVAVSNIRNYAVNTVPEHTFAMILAL
RRSLLGYRKSVKAGRWQEVNQFCYFDFPINDLAGSTLGIIGDGALGRSVADLGRAFGMKV
LFSDYKGTKGMGPLYTPFEKVLEASDVITLHSPLMSSTRNMISTAEFAQMTKRPLLINTA
RGGLVDEAALEVALRSGQISGAGFDVVTTEPPAADHPLMRLLDLPNFILTPHVAWASREA
VQSLVDQLIDNVEAFERGARTNIVAA