Protein Info for HSERO_RS19880 in Herbaspirillum seropedicae SmR1
Annotation: pyruvate dehydrogenase E1
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: 55% identical to ODP1_CUPNH: Pyruvate dehydrogenase E1 component (pdhA) from Cupriavidus necator (strain ATCC 17699 / H16 / DSM 428 / Stanier 337)
KEGG orthology group: K00163, pyruvate dehydrogenase E1 component [EC: 1.2.4.1] (inferred from 70% identity to bpt:Bpet1829)Predicted SEED Role
"Pyruvate dehydrogenase E1 component (EC 1.2.4.1)" in subsystem Methionine Degradation or Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate (EC 1.2.4.1)
MetaCyc Pathways
- pyruvate decarboxylation to acetyl CoA I (3/3 steps found)
- superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle (16/22 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 1.2.4.1
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
See D8ISN3 at UniProt or InterPro
Protein Sequence (893 amino acids)
>HSERO_RS19880 pyruvate dehydrogenase E1 (Herbaspirillum seropedicae SmR1) MSRPSDSDIARDIDIDSQETQEWLQALQSVLAEAGPERARFLLSRLSAAAQQWGVNWRDA RNTPYVNTIRPEQEPPFPGGSDAQAIEERIASIMRWNALAMVVRANRAYGELGGHIASFA SAADLFEVGFNHFFRARDEQFAGDVVYFQPHSAPGIYARAFLEGALSEDDLAYYRREIEA KRVGRQGLSSYPHPWLMPQFWQFPTGSMGIGPINAIYQARFLRYMEHRGLLQDQGRKVWG VFGDGEMDEPESLAALSLASREKLDNLIFVVNCNLQRLDGPVRGNGHIVDELETLFAGAG WNVIKLLWGSDWDGLFARDKDGELVDALNRTVDGQLQTFAANDGAFNRQHFFGQTPGTRA IGATLTDEEINRLRRGGHDMKKIYSAYQAAARHRGQPTVILAQTKKGYGMGAAGEGKMTT HQQKKLDEESLLQFRDRFKLPLSDEQCRALAFYKPADDSPEMKHLHARRAALSGYLPRRQ AGQARRAVPPLAAHSKFALEADGKEMSSTMALVRQLGNLLKDKDFGQYVVPIVADEARTF GMANLFRQVGIYSSQGQLYEPEDIGSILYYREAKDGQILEEGITEAGAISSWTAAATAYS VHGTPMLPFYIYYSMFGFQRIGDLIWAAADQRARGFLIGATSGRTTLGGEGLQHQDGNSL VTAASIPNCVSYDPAYAYELAVILDEGMRRMMERGDDVFYYITVTNENEAQPSLPEGVQD GILRGLYCLARKPQAQARLLGSGPILKEAVAAAALLQQHWQIEAEVWSVTSYTELARDGV AAQRAQRLAGSAALPYVTQQLQGSAVPVIAVSDYIRTLPESIRAFVPAPYVTLGTDGFGR SDTRVNLRDFFEIDARWIAYTALCEVWGDDRARLQEAARTLGIDTAKPLSSTV