Protein Info for GFF5315 in Variovorax sp. SCN45
Annotation: Diaminopimelate decarboxylase (EC 4.1.1.20)
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: 54% identical to DCDA_NEIMB: Diaminopimelate decarboxylase (lysA) from Neisseria meningitidis serogroup B (strain MC58)
KEGG orthology group: K01586, diaminopimelate decarboxylase [EC: 4.1.1.20] (inferred from 93% identity to vap:Vapar_1136)Predicted SEED Role
"Diaminopimelate decarboxylase (EC 4.1.1.20)" in subsystem Lysine Biosynthesis DAP Pathway (EC 4.1.1.20)
MetaCyc Pathways
- aspartate superpathway (24/25 steps found)
- superpathway of L-lysine, L-threonine and L-methionine biosynthesis I (17/18 steps found)
- L-lysine biosynthesis I (9/9 steps found)
- superpathway of L-lysine, L-threonine and L-methionine biosynthesis II (13/15 steps found)
- L-lysine biosynthesis III (6/7 steps found)
- L-lysine biosynthesis VI (6/7 steps found)
- L-lysine biosynthesis II (7/9 steps found)
KEGG Metabolic Maps
Isozymes
No predicted isozymesUse Curated BLAST to search for 4.1.1.20
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 (429 amino acids)
>GFF5315 Diaminopimelate decarboxylase (EC 4.1.1.20) (Variovorax sp. SCN45) MTGSVSSSSPLPGQPHVAQRDGALHVEGVALDALAREHGTPLFVYSKQWMLDALAAYQRG FEGRDALICYAMKANSSLGVLRVFAEAGCGFDIVSGGELSRVLAVGADPKKIIFSGVGKT RAEMRQALAAGIACFNVESEAELDVLSEVAAAEGKRAPISIRINPNVDPKTHPYISTGLK GNKFGIAHDRAVEAYRHAARLPGLEVVGIDCHIGSQITEASPYLDACDRVLDLVEAIEAA GVPIHHLDFGGGLGIDYNGEVPPKADALWQQLLAKLDARGFGQRKLVIEPGRSLVGNAGV CVTEVLYTKPGEDKNFCIIDAAMNDLPRPAMYQAFQRIVPVRTRAGDAPVYDVVGPVCES GDWIGRDRTLNVVAGDLLAVLSAGAYCMSMASNYNTRGRAAEVLVSGAAAKLIRRRETME DQLRAEIDG