Protein Info for GFF1796 in Variovorax sp. SCN45
Annotation: NADP-dependent malic enzyme (EC 1.1.1.40)
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: 62% identical to MAO2_ECOLI: NADP-dependent malic enzyme (maeB) from Escherichia coli (strain K12)
KEGG orthology group: K00029, malate dehydrogenase (oxaloacetate-decarboxylating)(NADP+) [EC: 1.1.1.40] (inferred from 96% identity to vpe:Varpa_4575)MetaCyc: 62% identical to malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) (Escherichia coli K-12 substr. MG1655)
RXN-16819 [EC: 4.1.1.101]; Malate dehydrogenase (oxaloacetate-decarboxylating) (NADP(+)). [EC: 4.1.1.101, 1.1.1.40]
Predicted SEED Role
"NADP-dependent malic enzyme (EC 1.1.1.40)" in subsystem Pyruvate metabolism I: anaplerotic reactions, PEP (EC 1.1.1.40)
MetaCyc Pathways
- gluconeogenesis I (11/13 steps found)
- protocatechuate degradation I (meta-cleavage pathway) (7/8 steps found)
- superpathway of vanillin and vanillate degradation (8/10 steps found)
- methylgallate degradation (5/6 steps found)
- L-malate degradation I (1/1 steps found)
- C4 photosynthetic carbon assimilation cycle, NADP-ME type (4/7 steps found)
- syringate degradation (7/12 steps found)
- C4 photosynthetic carbon assimilation cycle, PEPCK type (8/14 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 terpenoids and steroids
- Carbon fixation in photosynthetic organisms
- Pyruvate metabolism
Isozymes
Compare fitness of predicted isozymes for: 1.1.1.40
Use Curated BLAST to search for 1.1.1.40 or 4.1.1.101
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 (767 amino acids)
>GFF1796 NADP-dependent malic enzyme (EC 1.1.1.40) (Variovorax sp. SCN45) MAAPLSPAEEALREAAREYHRSPVKGKISVTPTKPLLNQRDLSLAYSPGVAYPCLDIAAD PATATEYTARGNLVGVITNGTAVLGLGNIGPLAAKPVMEGKGCLFKKFAGIDVFDIELAE NDPDKLVEIIAALEPTLGGINLEDIKAPECFYIEKKLRERMNIPVFHDDQHGTAIISAAA LLNGLELVGKKIEEVKIAVSGAGAAAIACLDVMVGLGAKPANIYACDSKGLIYAGRAGGF DESKTRYAQKDTGARTLADVVKDADVFLGCSAPGVMSAEMVKTMGSQPIILALANPEPEI RPELAKAVRPDCIIATGRSDYPNQVNNVLCFPYIFRGALDCGATKITEEMKLACVREIAD LTKADISEEVATAYAGQELAFGPDYIIPKPFDSRLILRIAPAVAKAAAASGVATRPIEDM DAYRQHLTRFVYQTGMFMRPVFSAAKIAAAKRVAYAEGEDERVLRAAQLAVDEGLAQPIL VGRPAVIEARIKKAGLHIRVGTDVEVVNPEDDPRFRIYWESFHKLMGRRGVTPEAAKTMV RRSNTIIAALMLHLGDADAMICGLVGRFDVHLEHIRNLIGLKRGAPGFATLNALTLEKRT VFITDTNVNEDPSAELLASIAMMAAEEVRRFGLPPKVAFLSHSNYGTSSRGSARKMRLAR DLFAQMAPDIECDGEMHGDSALSEEIRRTALPETTLTGEANLLVCPNLDSAHILYNVLKM TGANGITVGPILLGAAGSAHVLTPTSTVRRIVNMTALAVANATTALK