Protein Info for SO1928 in Shewanella oneidensis MR-1
Name: sdhA
Annotation: succinate dehydrogenase, flavoprotein subunit (NCBI ptt file)
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: 80% identical to SDHA_ECO57: Succinate dehydrogenase flavoprotein subunit (sdhA) from Escherichia coli O157:H7
KEGG orthology group: K00239, succinate dehydrogenase flavoprotein subunit [EC: 1.3.99.1] (inferred from 100% identity to son:SO_1928)MetaCyc: 80% identical to succinate:quinone oxidoreductase, FAD binding protein (Escherichia coli K-12 substr. MG1655)
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
- TCA cycle III (animals) (9/10 steps found)
- succinate to cytochrome bd oxidase electron transfer (2/2 steps found)
- aerobic respiration I (cytochrome c) (3/4 steps found)
- aerobic respiration II (cytochrome c) (yeast) (3/4 steps found)
- aerobic respiration III (alternative oxidase pathway) (2/3 steps found)
- succinate to cytochrome bo oxidase electron transfer (1/2 steps found)
KEGG Metabolic Maps
- Benzoate degradation via CoA ligation
- Biosynthesis of phenylpropanoids
- 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 1.3.99.1
Sequence Analysis Tools
PaperBLAST (search for papers about homologs of this protein)
Search CDD (the Conserved Domains Database, which includes COG and superfam)
Compare to protein 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 Q8EFP2 at UniProt or InterPro
Protein Sequence (588 amino acids)
>SO1928 succinate dehydrogenase, flavoprotein subunit (NCBI ptt file) (Shewanella oneidensis MR-1) MSIPVREFDAVVIGAGGAGMRAALQISKEGKSCALLSKVFPTRSHTVSAQGGITVALGNA HEDHWEQHMYDTVKGSDFIGDQDAIEFMCQTGPEAIIELEHMGLPFSRFDNGKIYQRPFG GQSKNFGGEQAARTAAAADRTGHALLHCLYQQNVKHKTQVFSEWYALDLVKNQDGAIVGC TAIEIETGEIVYFKAKATVLATGGAGRIYASTTNAHINTGDGVGMAMRAGVQMQDMEMWQ FHPTGIAGAGVLVTEGCRGEGGYLLNKDGERFMERYAPNAKDLASRDVVARSMMTEIREG RGLDGPLGPHCLLKLDHLGKETLEARLPGVCELSRTFAHIDPADGPIPVLPTCHYMMGGL PTKVSGQVIRKNTDGTEQDVVGLFAVGEIACVSVHGANRLGGNSLLDLVVFGRAAGQHLG KALDETADPKDATDADIQASLARLQRWESNKDGEDPVQIRKDLQLCMQLNFSVFRRGDAM AEGLEQLKAIRKRLENAKLSDNSREFNTQRIECLELDNLMATAIATAYAANFRTESRGAH SREDYLERDDENWLCHSLFDPVTETMDRRAVNMAPKLREAFPPKKRTY