Protein Info for AMB_RS00985 in Magnetospirillum magneticum AMB-1

Annotation: D-glycerate 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

• PF00389: 2-Hacid_dh
  • amino acids 18 to 323 (306 residues), 106.4 bits, E=1.5e-34
• PF02826: 2-Hacid_dh_C
  • amino acids 113 to 292 (180 residues), 200.1 bits, E=3.1e-63
• PF03446: NAD_binding_2
  • amino acids 153 to 239 (87 residues), 21.9 bits, E=2.3e-08

Best Hits

Swiss-Prot: 44% identical to GYAR_THEON: Glyoxylate reductase (gyaR) from Thermococcus onnurineus (strain NA1)

KEGG orthology group: K00015, glyoxylate reductase [EC: 1.1.1.26] (inferred from 100% identity to mag:amb0195)

MetaCyc: 44% identical to glyoxylate reductase (Pyrococcus furiosus DSM 3638)
Glyoxylate reductase. [EC: 1.1.1.26]

Predicted SEED Role

"Glyoxylate reductase (EC 1.1.1.79) / Glyoxylate reductase (EC 1.1.1.26) / Hydroxypyruvate reductase (EC 1.1.1.81)" in subsystem Glycolate, glyoxylate interconversions or Photorespiration (oxidative C2 cycle) (EC 1.1.1.26, EC 1.1.1.79, EC 1.1.1.81)

MetaCyc Pathways

• photorespiration I (7/9 steps found)
• L-serine biosynthesis II (3/4 steps found)
• photorespiration III (6/9 steps found)
• photorespiration II (6/10 steps found)
• formaldehyde assimilation I (serine pathway) (8/13 steps found)
• L-arabinose degradation IV (2/8 steps found)
• D-xylose degradation IV (1/7 steps found)
• superpathway of pentose and pentitol degradation (4/42 steps found)

KEGG Metabolic Maps

• Glycine, serine and threonine metabolism
• Glyoxylate and dicarboxylate metabolism
• Pyruvate metabolism

Isozymes

Compare fitness of predicted isozymes for: 1.1.1.81

Use Curated BLAST to search for 1.1.1.26 or 1.1.1.79 or 1.1.1.81

Sequence Analysis Tools

See Q2WAX6 at UniProt or InterPro

Protein Sequence (328 amino acids)

>AMB_RS00985 D-glycerate dehydrogenase (Magnetospirillum magneticum AMB-1)
MPSKKPVVVVSRKLPDVIETRMMELFDTRLNVDDHPMTKTELIEAVKIADVLVPTVTDRI
DAGILSQAGPNLKLVANFGTGVDHIDLATARQRGITVTNTPGVLTEDTADMAMALIMSVP
RRIAEGERLIRSGDWKGWSPTFMLGHRIWGKRLGIIGMGRIGQAVARRAKAFGMSIHYHN
RKRVHPDIETELEATYWESLDQMLARMDVVTVHCPHTPATFHLLSARRLELLPKHAYVVN
TARGEIVDENALTRMLIRGDLAGAGLDVFEHEPAVNPKLLALDNVVLLPHLGSATIEGRV
DMGEKVLVNIKTFADGHQPPDRVLASMF