Protein Info for Sama_3250 in Shewanella amazonensis SB2B

Annotation: diaminopimelate decarboxylase (RefSeq)

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

• TIGR01048: diaminopimelate decarboxylase
  • amino acids 8 to 410 (403 residues), 525.2 bits, E=4.7e-162
• PF00278: Orn_DAP_Arg_deC
  • amino acids 30 to 368 (339 residues), 97.3 bits, E=7.9e-32
• PF02784: Orn_Arg_deC_N
  • amino acids 35 to 280 (246 residues), 239.1 bits, E=7.4e-75
• PF01168: Ala_racemase_N
  • amino acids 37 to 234 (198 residues), 28.5 bits, E=1.8e-10

Best Hits

Swiss-Prot: 66% identical to DCDA_VIBCH: Diaminopimelate decarboxylase (lysA) from Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)

KEGG orthology group: K01586, diaminopimelate decarboxylase [EC: 4.1.1.20] (inferred from 100% identity to saz:Sama_3250)

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 (23/25 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

• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Lysine biosynthesis

Isozymes

No predicted isozymes

Use Curated BLAST to search for 4.1.1.20

Sequence Analysis Tools

See A1SAP6 at UniProt or InterPro

Protein Sequence (414 amino acids)

>Sama_3250 diaminopimelate decarboxylase (RefSeq) (Shewanella amazonensis SB2B)
MDHFLYREERLFAEECDVAGLAAEHGTPLYVYSRATLERHWHAFDGAVASHPHLICYAVK
ANSNLAVLNVLARLGSGFDIVSGGELSRVLEAGGDPAKVVFSGVGKTVAEMELALNTGIM
CFNLESGAELELLNEVAGRLGKVAPVSLRVNPDVDAGTHPYISTGLKENKFGIPMEEAEA
LFARAAALPNLAVKGVDCHIGSQLTELKPFLDAMDRMLALIDRLAEQGIVIEHFDVGGGL
GVTYNGETPPHPDVYAAAILEKLNGRPLKLIFEPGRAIAANAGIFVTQVLYTKDNGDKRF
VIVDGAMNDLIRPSLYGAWQNIIPAVKTNEPTTRCDVVGPVCETGDFLGKDRELAAGSGD
LLVVRSAGAYGFTMASNYNTRPRAAELMVDGDKAYVVREREKLSQLWQGEQLLP