Protein Info for Atu0370 in Agrobacterium fabrum C58

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

1 50 100 150 200 250 300 350 398 TIGR01246: succinyl-diaminopimelate desuccinylase" amino acids 11 to 390 (380 residues), 414.7 bits, see alignment E=1.7e-128 PF01546: Peptidase_M20" amino acids 69 to 389 (321 residues), 152 bits, see alignment E=2.2e-48 PF07687: M20_dimer" amino acids 182 to 289 (108 residues), 92.2 bits, see alignment E=1.9e-30

Best Hits

Swiss-Prot: 100% identical to DAPE_AGRFC: Succinyl-diaminopimelate desuccinylase (dapE) from Agrobacterium fabrum (strain C58 / ATCC 33970)

KEGG orthology group: K01439, succinyl-diaminopimelate desuccinylase [EC: 3.5.1.18] (inferred from 100% identity to atu:Atu0370)

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

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 3.5.1.18

Use Curated BLAST to search for 3.5.1.18

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Compare to protein structures

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

See A9CKC4 at UniProt or InterPro

Protein Sequence (398 amino acids)

>Atu0370 succinyl-diaminopimelate desuccinylase (Agrobacterium fabrum C58)
MTTTDPVANLAALIRCPSVTPAEGGALSLLDTLLSPLGFAVERVMATEDGTPDVENLYAR
LGTEGPHLMFAGHTDVVPVGDEAAWSHPPFSADIAGGEMYGRGAVDMKGGIACFVAAIAR
HIGKHGKPQGSVSFLITGDEEGPSINGTSKLLEWAAAKGETWDACVVGEPTNPDQLGDMI
KIGRRGSLSGRITVQGVQGHAAYPHLADNPIRGLLQLTHALMHPAFDHGTDDFQPSNLEV
TTVDTGNAATNVIPARATAAFNIRFNDSWTAESLRAEIIRRLDAAANEGELRPDRAPVKY
EIVWADRPSHVFLTRNNALISSLSGAIETVTGKEPKLSTTGGTSDARFIKDYCPVVEFGL
VGQTMHMVDERVAVADLETLTRIYETFIERWFAHADGK