Protein Info for GFF1925 in Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868

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

• PF02784: Orn_Arg_deC_N
  • amino acids 55 to 313 (259 residues), 133.3 bits, E=1.5e-42
• PF01168: Ala_racemase_N
  • amino acids 56 to 232 (177 residues), 27.5 bits, E=3.7e-10
• PF00278: Orn_DAP_Arg_deC
  • amino acids 134 to 420 (287 residues), 43 bits, E=6.7e-15

Best Hits

KEGG orthology group: K01586, diaminopimelate decarboxylase [EC: 4.1.1.20] (inferred from 99% identity to sec:SC2362)

MetaCyc: 100% identical to D-lysine decarboxylase / D-ornithine decarboxylase (Salmonella enterica enterica serovar Typhimurium str. LT2)
RXN-20175 [EC: 4.1.1.116]; 4.1.1.116 [EC: 4.1.1.116]

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 (18/18 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 (6/9 steps found)

KEGG Metabolic Maps

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

Isozymes

Compare fitness of predicted isozymes for: 4.1.1.20

Use Curated BLAST to search for 4.1.1.116 or 4.1.1.20

Protein Sequence (465 amino acids)

>GFF1925 Diaminopimelate decarboxylase (EC 4.1.1.20) (Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868)
MTDSIMQNYNQLREQVINGDRRFQHKDGHLCFEGVDLDALARQYPTPFYVFSEPEIIRNI
HEIQQAFAAHKNTKTFFASKTCSVMGVLKAIRDAGICAEANSQYEVRKCLEIGFRGDQIV
FNGVVKKPADLEYAIANDLYLINVDSLYELEHIDAISRKLKKVANVCVRVEPNVPSATHA
ELVTAFHAKSGLDLEQAEETCRRILAMPYVHLRGLHMHVGDQVPESEPFAKATKVLVDES
RRLEEVLGIKFDLINVGGGIPVPYKYDDENGDPLKDNMYAGITAQDFADAVIREVHKWRT
DVEICIEPGRKVTGSAAVLLTEVSCEKRKTNYDLNGNVECHVEWKFVDAGYSVLSDSQHF
DWFFYVYNASRMTAAHDAWIKLAGPLCDGGDYFHMGVKGEEFLLPKETHVGDIVAFLDAG
AYTIESQTVYNNRPRTGVVMIDKNGDTRLIRREDSYEDMVKYDIY