Protein Info for mRNA_3313 in Rhodosporidium toruloides IFO0880
Name: 11681
Annotation: K00030 IDH3 isocitrate dehydrogenase (NAD+)
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: 66% identical to IDH2_SCHPO: Isocitrate dehydrogenase [NAD] subunit 2, mitochondrial (idh2) from Schizosaccharomyces pombe (strain 972 / ATCC 24843)
KEGG orthology group: K00030, isocitrate dehydrogenase (NAD+) [EC: 1.1.1.41] (inferred from 78% identity to uma:UM01328.1)MetaCyc: 64% identical to isocitrate dehydrogenase [NAD] beta subunit (Saccharomyces cerevisiae)
Isocitrate--homoisocitrate dehydrogenase. [EC: 1.1.1.286, 1.1.1.41]
Predicted SEED Role
"Isocitrate dehydrogenase [NAD] (EC 1.1.1.41)" in subsystem TCA Cycle (EC 1.1.1.41)
MetaCyc Pathways
- superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle (20/22 steps found)
- TCA cycle III (animals) (10/10 steps found)
- TCA cycle II (plants and fungi) (9/9 steps found)
- nitrogen remobilization from senescing leaves (5/8 steps found)
- L-lysine biosynthesis IV (5/9 steps found)
- L-lysine biosynthesis V (4/10 steps found)
- coenzyme B biosynthesis (4/16 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 plant hormones
- Biosynthesis of terpenoids and steroids
- Citrate cycle (TCA cycle)
Isozymes
Compare fitness of predicted isozymes for: 1.1.1.41
Use Curated BLAST to search for 1.1.1.286 or 1.1.1.41
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 (371 amino acids)
>mRNA_3313 K00030 IDH3 isocitrate dehydrogenase (NAD+) (Rhodosporidium toruloides IFO0880) MFTRTSLRTASRAFSTSAPRAYASQGAAPSGYVPNTNADGTYNVTLIPGDGIGPEISRSV KEIYDAAKVPIKWEEVSVTPILVDGVSTIPADAIASIKKNTIALKGPLATPIGKGHVSLN LTLRRTFNLYANVRPCRSIEGYKTAYDNVDTVLIRENTEGEYSGIEHEVVDGVVQSIKLI THNASSRVARYAFEYARANKRPHVTAVHKAPIMKMSDGMFLRACRELAPEYPDIKYDEDL LDRVCLRVVQNPAPYSDRVMVMPNLYGDILSDMCAGLIGGLGLTPSGNIGKDASIFEAVH GSAPDIEGKNLANPTALLLSSLMMLRHMKLTQKADLIEKAVLSTIAEGTRTRDLGGKAST QQFTDEILKKL