Protein Info for HER17_RS02385 in Pectobacterium carotovorum WPP14

Annotation: succinate dehydrogenase/fumarate reductase iron-sulfur 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

• PF13085: Fer2_3
  • amino acids 9 to 112 (104 residues), 115.6 bits, E=2.8e-37
• TIGR00384: succinate dehydrogenase and fumarate reductase iron-sulfur protein
  • amino acids 12 to 230 (219 residues), 322.6 bits, E=5.6e-101
• PF13237: Fer4_10
  • amino acids 145 to 217 (73 residues), 47.5 bits, E=3.5e-16
• PF13183: Fer4_8
  • amino acids 148 to 220 (73 residues), 44.4 bits, E=5e-15
• PF13534: Fer4_17
  • amino acids 150 to 221 (72 residues), 34.3 bits, E=6.7e-12
• PF12838: Fer4_7
  • amino acids 150 to 219 (70 residues), 30.9 bits, E=8e-11

Best Hits

Swiss-Prot: 85% identical to FRDB_PROVU: Fumarate reductase iron-sulfur subunit (frdB) from Proteus vulgaris

KEGG orthology group: K00245, fumarate reductase iron-sulfur protein [EC: 1.3.99.1] (inferred from 98% identity to pwa:Pecwa_3937)

MetaCyc: 85% identical to fumarate reductase iron-sulfur protein (Escherichia coli K-12 substr. MG1655)
Succinate dehydrogenase (ubiquinone). [EC: 1.3.5.1]

Predicted SEED Role

"Succinate dehydrogenase iron-sulfur protein (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 glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass (25/26 steps found)
• mixed acid fermentation (16/16 steps found)
• superpathway of glyoxylate bypass and TCA (11/12 steps found)
• superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle (18/22 steps found)
• TCA cycle I (prokaryotic) (9/10 steps found)
• partial TCA cycle (obligate autotrophs) (7/8 steps found)
• superpathway of glyoxylate cycle and fatty acid degradation (11/14 steps found)
• TCA cycle III (animals) (8/10 steps found)
• TCA cycle VIII (Chlamydia) (5/6 steps found)
• NADH to fumarate electron transfer (2/2 steps found)
• glycerol-3-phosphate to fumarate electron transfer (2/2 steps found)
• succinate to cytochrome bd oxidase electron transfer (2/2 steps found)
• TCA cycle II (plants and fungi) (7/9 steps found)
• TCA cycle IV (2-oxoglutarate decarboxylase) (7/9 steps found)
• TCA cycle V (2-oxoglutarate synthase) (7/9 steps found)
• TCA cycle VI (Helicobacter) (7/9 steps found)
• reductive TCA cycle I (8/11 steps found)
• incomplete reductive TCA cycle (5/7 steps found)
• aerobic respiration III (alternative oxidase pathway) (2/3 steps found)
• hydrogen to fumarate electron transfer (1/2 steps found)
• succinate to cytochrome aa₃ oxidase electron transfer (1/2 steps found)
• succinate to cytochrome bo oxidase electron transfer (1/2 steps found)
• TCA cycle VII (acetate-producers) (6/9 steps found)
• reductive TCA cycle II (8/12 steps found)
• aerobic respiration I (cytochrome c) (2/4 steps found)
• aerobic respiration II (cytochrome c) (yeast) (2/4 steps found)
• pyruvate fermentation to propanoate I (3/7 steps found)
• anaerobic energy metabolism (invertebrates, mitochondrial) (5/10 steps found)
• superpathway of anaerobic energy metabolism (invertebrates) (10/17 steps found)
• (S)-lactate fermentation to propanoate, acetate and hydrogen (7/13 steps found)
• L-glutamate degradation VIII (to propanoate) (3/11 steps found)
• methylaspartate cycle (8/19 steps found)
• Methanobacterium thermoautotrophicum biosynthetic metabolism (22/56 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

Protein Sequence (245 amino acids)

>HER17_RS02385 succinate dehydrogenase/fumarate reductase iron-sulfur subunit (Pectobacterium carotovorum WPP14)
MAEMIKTLKMEVMRYNPEQDNEPYFETFDVPYNTQTSLLDALGYIKDNLAPDLSYRWSCR
MAICGSCGMMVNNVPKLACKTFLREYTNGLKVEALGNFPIERDLVVDMTHFIESLEAIKP
YIIGNDRKPADGPNKQTPAQMAKYHQFSGCINCGLCYAACPQFGLNPEFIGPAAITLAHR
YNLDNRDHGKKERMAQLNGNNGVWTCTFVGYCSEVCPKHVDPAAAIQQGKVESAKDFMIA
MLKPQ