Protein Info for GFF4398 in Xanthobacter sp. DMC5

Annotation: Succinyl-diaminopimelate desuccinylase

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

• TIGR01246: succinyl-diaminopimelate desuccinylase
  • amino acids 20 to 387 (368 residues), 418.7 bits, E=1e-129
• PF01546: Peptidase_M20
  • amino acids 80 to 386 (307 residues), 133 bits, E=1.4e-42
• PF07687: M20_dimer
  • amino acids 190 to 292 (103 residues), 79.8 bits, E=1.4e-26

Best Hits

Swiss-Prot: 85% identical to DAPE_XANP2: Succinyl-diaminopimelate desuccinylase (dapE) from Xanthobacter autotrophicus (strain ATCC BAA-1158 / Py2)

KEGG orthology group: K01439, succinyl-diaminopimelate desuccinylase [EC: 3.5.1.18] (inferred from 85% identity to xau:Xaut_2093)

MetaCyc: 44% identical to succinyl-diaminopimelate desuccinylase (Escherichia coli K-12 substr. MG1655)
Succinyl-diaminopimelate desuccinylase. [EC: 3.5.1.18]

Predicted SEED Role

"N-succinyl-L,L-diaminopimelate desuccinylase (EC 3.5.1.18)" in subsystem Arginine Biosynthesis extended or Lysine Biosynthesis DAP Pathway (EC 3.5.1.18)

MetaCyc Pathways

• aspartate superpathway (22/25 steps found)
• L-lysine biosynthesis I (9/9 steps found)
• superpathway of L-lysine, L-threonine and L-methionine biosynthesis I (15/18 steps found)

KEGG Metabolic Maps

• Lysine biosynthesis

Isozymes

No predicted isozymes

Use Curated BLAST to search for 3.5.1.18

Protein Sequence (393 amino acids)

>GFF4398 Succinyl-diaminopimelate desuccinylase (Xanthobacter sp. DMC5)
MTADASVKPELRANVPDALTLATELIRAPSVTPDSGGALEIVARRLEAFGYHVERLTFDS
GGIPIPNIYARIGTGAPNLCFAGHVDVVPEGDPAHWLHGPFAGTVEDGKLFGRGAVDMKG
AVAAFLAAALAHGRPETGSLSFLITGDEEGPALDGTVKVVEWLKEKGEVIDHCVLGEPTN
PQAMGDAFKVGRRGSLSGILTVKGVQGHVAYPHLADNPIPRLLKLVGELTSAPLDHGSDF
FPPSNLEVVSIDVGNPVFNLIPAEATARFNVRFNDLYSLETLKSEIIRRIDGAGLTYDLA
FQPGASQSFLTAPGPFVELVADAVEVETGRRPEASTSGGTSDARFIKDICPVVEFGLVGQ
TMHKVDEATPVADLEVLKRIYSRIIARYFATFA