Protein Info for GFF967 in Variovorax sp. SCN45
Annotation: Pyruvate dehydrogenase E1 component (EC 1.2.4.1)
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: 61% 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 90% identity to aav:Aave_2462)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
- superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle (20/22 steps found)
- pyruvate decarboxylation to acetyl CoA I (3/3 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
Find the best match in UniProt
Protein Sequence (904 amino acids)
>GFF967 Pyruvate dehydrogenase E1 component (EC 1.2.4.1) (Variovorax sp. SCN45) MSANPENLFGSAANDADAQETREWMDALSSVIQSEGPERAHFLLEQLLEHARQNTVDMPF SANTGYVNTIEPSQEARSPGNLEIEQRLRAYMRWNAMAMVVKANRHHPAEGGDLGGHIGS FASLASMFGAGFNHFWHAESENHGGDLLYIQGHVSPGIYARAYLEGRLSEEQLLNFRQEV DGKGLSSYPHPKLMPEFWQFPTVSMGLGPLMAIYQARFLKYLHARGIANTENRKVWVFCG DGEMDEVESLGAIGLAARENLDNLIFVINCNLQRLDGPVRGNGKIIQELEGEFRGANWNV VKLIWGKGWDALLEKDHDGALRKIMMECNDGDYQSFKANDGAYVRKNFFGRDPRTLKMVE HMTDDEVWNLQRGGHDSQKVYAAFHSAQNHKGQPTVLLVKTVKGFGMGKIGEGKNTVHQT KKLGDEDIKAFRDRFNIPIPDSQIAELPFYKPADDTPEMRYLHERRKALGGYLPHRRVKA EESFTVPSLDTFKAVMEPTAEGREISTTQAYVRFLTQLLRDKALGPRVVPILVDEARTFG MEGLFRQIGIYNPHGQQYTPVDKDQVMYYKEDKAGQILQEGINEAGGMSSWIAAATSYST NNRIMVPFYVYYSMFGFQRIGDLAWAAGDMQARGFLLGGTSGRTTLNGEGLQHEDGHSHI LANTIPNCVSYDPTFAHEVGVILHHGLKRMVEKQDNVYYYITLLNENYAMPGLQPGTEEQ IIKGMYLSKQGPALKAKAPTVQLLGSGTILRESFAAQELLEKDWGVSASVWSCPSFNELT RDGQDADRWNLLHPDQTPRVPFVAEQLGATTGPVVASTDYMKAYAEQIRPFIPKGRTYKV LGTDGFGRSDFRNKLREHFEINRHYIVVAALKALSEDGTVPVAKVVEAIKKYGINVDKVN PLYA