Protein Info for AMB_RS20000 in Magnetospirillum magneticum AMB-1

Annotation: succinate dehydrogenase flavoprotein subunit

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

• TIGR01816: succinate dehydrogenase, flavoprotein subunit
  • amino acids 9 to 593 (585 residues), 984.8 bits, E=1e-300
• TIGR01812: succinate dehydrogenase or fumarate reductase, flavoprotein subunit
  • amino acids 12 to 593 (582 residues), 804.7 bits, E=4.4e-246
• PF00890: FAD_binding_2
  • amino acids 12 to 406 (395 residues), 418.1 bits, E=4.8e-129
• PF02910: Succ_DH_flav_C
  • amino acids 461 to 593 (133 residues), 155.9 bits, E=5.4e-50

Best Hits

Swiss-Prot: 71% identical to SDHA_RICCN: Succinate dehydrogenase flavoprotein subunit (sdhA) from Rickettsia conorii (strain ATCC VR-613 / Malish 7)

KEGG orthology group: K00239, succinate dehydrogenase flavoprotein subunit [EC: 1.3.99.1] (inferred from 100% identity to mag:amb3952)

MetaCyc: 69% identical to complex II subunit 1 (Arabidopsis thaliana col)
Succinate dehydrogenase (ubiquinone). [EC: 1.3.5.1]; 1.3.5.1 [EC: 1.3.5.1]

Predicted SEED Role

"Succinate dehydrogenase flavoprotein subunit (EC 1.3.99.1)" in subsystem Serine-glyoxylate cycle or Succinate dehydrogenase or TCA Cycle (EC 1.3.99.1)

MetaCyc Pathways

• superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle (20/22 steps found)
• TCA cycle V (2-oxoglutarate synthase) (9/9 steps found)
• TCA cycle I (prokaryotic) (9/10 steps found)
• TCA cycle III (animals) (9/10 steps found)
• TCA cycle VIII (Chlamydia) (6/6 steps found)
• TCA cycle II (plants and fungi) (8/9 steps found)
• TCA cycle VII (acetate-producers) (8/9 steps found)
• superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass (20/26 steps found)
• reductive TCA cycle I (9/11 steps found)
• incomplete reductive TCA cycle (6/7 steps found)
• superpathway of anaerobic energy metabolism (invertebrates) (13/17 steps found)
• TCA cycle IV (2-oxoglutarate decarboxylase) (7/9 steps found)
• superpathway of glyoxylate bypass and TCA (9/12 steps found)
• methylaspartate cycle (14/19 steps found)
• partial TCA cycle (obligate autotrophs) (6/8 steps found)
• aerobic respiration I (cytochrome c) (3/4 steps found)
• aerobic respiration III (alternative oxidase pathway) (2/3 steps found)
• hydrogen to fumarate electron transfer (1/2 steps found)
• succinate to cytochrome bd oxidase electron transfer (1/2 steps found)
• succinate to cytochrome bo oxidase electron transfer (1/2 steps found)
• TCA cycle VI (Helicobacter) (6/9 steps found)
• reductive TCA cycle II (8/12 steps found)
• aerobic respiration II (cytochrome c) (yeast) (2/4 steps found)
• superpathway of glyoxylate cycle and fatty acid degradation (9/14 steps found)
• anaerobic energy metabolism (invertebrates, mitochondrial) (6/10 steps found)
• pyruvate fermentation to propanoate I (3/7 steps found)
• (S)-lactate fermentation to propanoate, acetate and hydrogen (7/13 steps found)
• mixed acid fermentation (9/16 steps found)
• L-glutamate degradation VIII (to propanoate) (3/11 steps found)
• Methanobacterium thermoautotrophicum biosynthetic metabolism (20/56 steps found)

KEGG Metabolic Maps

• Benzoate degradation via CoA ligation
• Biosynthesis of alkaloids derived from histidine and purine
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from terpenoid and polyketide
• Biosynthesis of phenylpropanoids
• Biosynthesis of plant hormones
• Biosynthesis of terpenoids and steroids
• Butanoate metabolism
• Citrate cycle (TCA cycle)
• Oxidative phosphorylation
• Reductive carboxylate cycle (CO2 fixation)

Isozymes

Compare fitness of predicted isozymes for: 1.3.99.1

Use Curated BLAST to search for 1.3.5.1 or 1.3.99.1

Sequence Analysis Tools

See Q2W069 at UniProt or InterPro

Protein Sequence (593 amino acids)

>AMB_RS20000 succinate dehydrogenase flavoprotein subunit (Magnetospirillum magneticum AMB-1)
MAAYKIIDHTYDVVVVGAGGAGLRATMGMGQAGFKTACITKVFPTRSHTVAAQGGIGASL
GNMAEDNWKWHMYDTVKGSDWLGDQDAIEYMCREAVPAVHELEHFGVPFSRTPEGKIYQR
PFGGHMSNFGEKPVQRACAAADRTGHAILHTLYSQCLKHQCEFFIEYFAIDLIMENGACR
GVVAWNLDDGTLHRFRAHKVVLASGGYGRAFFSCTSAHTCTGDGHGLVARAGLPLQDMEF
VQFHPTGIYGSGCLITEGARGEGGYVTNSAGERFMERYAPTAKDLASRDVVSRAMTMEIR
EGRGVGKEHDHIFLHLEHLGAETLELRLPGISETAKIFAGVDVTKEPIPVLPTVHYNMGG
IPTNVYGEVLRPTAENPDATVEGLMAIGEAACVSVHGANRLGTNSLLDIVVFGRACALRA
AETMKPGTAHKPLPKDGSDLALSRFDRLRNANGSMHTSEIRLAMQKTMQMDAAVFRTSKS
LAEGCAKMDQVASTLPQLKINDRSTVWNSDLVEALELENLMDCALATIVSAEARHESRGA
HAHEDYPDRDDVNWQKHSLAWVENGKVKLDYRPVHTYTLTDEVEYIKPQKRVY