Protein Info for SO1933 in Shewanella oneidensis MR-1

Name: sucD
Annotation: succinyl-CoA synthase, alpha 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

• TIGR01019: succinate-CoA ligase, alpha subunit
  • amino acids 4 to 285 (282 residues), 479.9 bits, E=1.4e-148
• PF02629: CoA_binding
  • amino acids 6 to 99 (94 residues), 111.9 bits, E=4.3e-36
• PF13607: Succ_CoA_lig
  • amino acids 145 to 282 (138 residues), 52 bits, E=1.3e-17
• PF00549: Ligase_CoA
  • amino acids 151 to 271 (121 residues), 99.5 bits, E=3.3e-32

Best Hits

Swiss-Prot: 86% identical to SUCD_PSEAE: Succinate--CoA ligase [ADP-forming] subunit alpha (sucD) from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)

KEGG orthology group: K01902, succinyl-CoA synthetase alpha subunit [EC: 6.2.1.5] (inferred from 99% identity to she:Shewmr4_1638)

MetaCyc: 87% identical to succinyl-CoA synthetase subunit alpha (Escherichia coli K-12 substr. MG1655)
Succinate--CoA ligase (ADP-forming). [EC: 6.2.1.5]

Predicted SEED Role

"Succinyl-CoA ligase [ADP-forming] alpha chain (EC 6.2.1.5)" in subsystem Serine-glyoxylate cycle or TCA Cycle (EC 6.2.1.5)

MetaCyc Pathways

• superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass (22/26 steps found)
• superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle (18/22 steps found)
• TCA cycle III (animals) (9/10 steps found)
• TCA cycle II (plants and fungi) (8/9 steps found)
• superpathway of glyoxylate bypass and TCA (10/12 steps found)
• TCA cycle I (prokaryotic) (8/10 steps found)
• TCA cycle VIII (Chlamydia) (5/6 steps found)
• TCA cycle V (2-oxoglutarate synthase) (7/9 steps found)
• adipate degradation (4/5 steps found)
• pyruvate fermentation to acetate V (2/3 steps found)
• adipate biosynthesis (3/5 steps found)
• reductive TCA cycle I (7/11 steps found)
• incomplete reductive TCA cycle (4/7 steps found)
• pyruvate fermentation to acetate VI (1/3 steps found)
• anaerobic energy metabolism (invertebrates, mitochondrial) (5/10 steps found)
• superpathway of anaerobic energy metabolism (invertebrates) (10/17 steps found)
• reductive TCA cycle II (6/12 steps found)
• methylaspartate cycle (9/19 steps found)
• Methanobacterium thermoautotrophicum biosynthetic metabolism (22/56 steps found)

KEGG Metabolic Maps

• 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
• C5-Branched dibasic acid metabolism
• Citrate cycle (TCA cycle)
• Propanoate metabolism
• Reductive carboxylate cycle (CO2 fixation)

Isozymes

Compare fitness of predicted isozymes for: 6.2.1.5

Use Curated BLAST to search for 6.2.1.5

Sequence Analysis Tools

See Q8EFN7 at UniProt or InterPro

Protein Sequence (290 amino acids)

>SO1933 succinyl-CoA synthase, alpha subunit (NCBI ptt file) (Shewanella oneidensis MR-1)
MSVLINKDTKVICQGFTGGQGTFHSQQAIDYGTQMVGGVSPGKGGSEHLGLPVFNTVKDA
VAATGATASVIYVPAPFCKDAILEAIDGGIELIVCITEGIPTLDMLQVKVKLEETGVRMI
GPNCPGVITPGECKIGIMPGHIHLKGKVGIVSRSGTLTYEAVKQTTDEGFGQSTCVGIGG
DPIPGTNFIDVLEMFQNDPQTEAIVMIGEIGGTAEEEAAAYIKAHVTKPVVSYIAGVTAP
AGKRMGHAGAIIAGGKGTAADKFAALEAAGVTTVRSLADIGKALRAKTGW