Protein Info for mRNA_5580 in Rhodosporidium toruloides IFO0880
Name: 13948
Annotation: K00162 PDHB, pdhB pyruvate dehydrogenase E1 component beta 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
Best Hits
Swiss-Prot: 71% identical to ODPB_SCHPO: Pyruvate dehydrogenase E1 component subunit beta, mitochondrial (pdb1) from Schizosaccharomyces pombe (strain 972 / ATCC 24843)
KEGG orthology group: K00162, pyruvate dehydrogenase E1 component subunit beta [EC: 1.2.4.1] (inferred from 82% identity to scm:SCHCODRAFT_48740)MetaCyc: 68% identical to pyruvate dehydrogenase E1 component beta subunit (Homo sapiens)
Pyruvate dehydrogenase (acetyl-transferring). [EC: 1.2.1.104, 1.2.4.1]
Predicted SEED Role
"Pyruvate dehydrogenase E1 component beta subunit (EC 1.2.4.1)" in subsystem Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate (EC 1.2.4.1)
MetaCyc Pathways
- superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle (20/22 steps found)
- superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass (22/25 steps found)
- TCA cycle III (animals) (10/10 steps found)
- TCA cycle II (plants and fungi) (9/9 steps found)
- superpathway of glyoxylate bypass and TCA (11/12 steps found)
- TCA cycle I (prokaryotic) (9/10 steps found)
- TCA cycle VIII (Chlamydia) (6/6 steps found)
- pyruvate decarboxylation to acetyl CoA I (3/3 steps found)
- pyruvate fermentation to acetate II (2/3 steps found)
- pyruvate fermentation to acetate V (2/3 steps found)
- pyruvate fermentation to acetate and (S)-lactate I (2/4 steps found)
- 1-butanol autotrophic biosynthesis (engineered) (18/27 steps found)
- photosynthetic 3-hydroxybutanoate biosynthesis (engineered) (16/26 steps found)
- anaerobic energy metabolism (invertebrates, mitochondrial) (4/10 steps found)
- superpathway of anaerobic energy metabolism (invertebrates) (8/17 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
- Butanoate metabolism
- Citrate cycle (TCA cycle)
- Glycolysis / Gluconeogenesis
- Pyruvate metabolism
- Valine, leucine and isoleucine biosynthesis
Isozymes
Compare fitness of predicted isozymes for: 1.2.4.1
Use Curated BLAST to search for 1.2.1.104 or 1.2.4.1
Sequence Analysis Tools
PaperBLAST (search for papers about homologs of this protein)
Search CDD (the Conserved Domains Database, which includes COG and superfam)
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
Find the best match in UniProt
Protein Sequence (329 amino acids)
>mRNA_5580 K00162 PDHB, pdhB pyruvate dehydrogenase E1 component beta subunit (Rhodosporidium toruloides IFO0880) MTVREALNSAMEEEMTRDETVFILGEEVAQYNGAYKVTKGLLDKFGEKRVIDTPITEAGF CGLAVGAAFAGLRPICEFMTFNFAMQAIDQIVNSAGKTYYMSGGNVPCPVVFRGPNGAAA GVGAQHSQDYAAWYGQIPGLKVVSPWSAEDCRGLLKAAIRDPNPVVVLENEIMYGQTFKV SKEAQSTDFLLPIGKAKIERSGKDVTIVGHSRMVGFALEAAEILAKEDGVECEVINMRSI RPLDIDTIKESVKKTNRLVTVEGGFPMFGVGSEIAAQIVESEAFDALDAPIERVTGADLP TPYAASLESLAFPDSSTILKAVRRSLYRV