Protein Info for Shew_1653 in Shewanella loihica PV-4
Name: sdhA
Annotation: succinate dehydrogenase flavoprotein subunit (RefSeq)
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_SALTY: Succinate dehydrogenase flavoprotein subunit (sdhA) from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
KEGG orthology group: K00239, succinate dehydrogenase flavoprotein subunit [EC: 1.3.99.1] (inferred from 100% identity to slo:Shew_1653)MetaCyc: 79% 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)
- succinate to cytochrome bo 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)
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 A3QDH2 at UniProt or InterPro
Protein Sequence (588 amino acids)
>Shew_1653 succinate dehydrogenase flavoprotein subunit (RefSeq) (Shewanella loihica PV-4) MSIPVREFDAVVIGAGGAGMRAALQISKEGKSCALLSKVFPTRSHTVSAQGGITVALGNA HEDHWEQHMYDTVKGSDFIGDQDAIEFMCQTGPEAIIELEHMGLPFSRFDNGKIYQRPFG GQSKNFGGEQAARTAAAADRTGHALLHCLYQQNVKHKTEVFSEWYALDLVKNEDGAIVGC TAIEIETGEIVYFKSKATILATGGAGRIYASTTNAHINTGDGVGMAMRAGVQMQDMEMWQ FHPTGIAGAGVLVTEGCRGEGGYLLNKDGERFMERYAPNAKDLASRDVVARSMMTEIREG RGLDGPLGPHCLLKLDHLGKETLEARLPGVCELSRTFAHIDPADGPIPVLPTCHYMMGGL PAKVSGQVIRKNEDGSESDVVGLFAVGEIACVSVHGANRLGGNSLLDLVVFGRAAGQHLG KALDETADPKEASADEIAKSLERLNRWESNKDGEDPAQIRKDLQLCMQLNFSVFRTGEAM AEGLEELKAIRERLANAKLSDNSREFNTQRIECLELDNLMATAIATAYAANFRQESRGAH SREDFLERDDENWLCHSLFDPQTEQMTKRAVNMEPKLREAFPPIKRTY