_EC 4.1.1.20 Diaminopimelate decarboxylase. 13 PDB entries  
EC 4.-.-.- Lyases. [3,670 PDB entries]
EC 4.1.-.- Carbon-carbon lyases. [1,229 PDB entries]
EC 4.1.1.- Carboxy-lyases. [727 PDB entries]
EC 4.1.1.20 Diaminopimelate decarboxylase. [13 PDB entries]    
1hkv

Pathway: Lysine biosynthesis (later stages)
Reaction: Meso-2,6-diaminoheptanedioate = L-lysine + CO(2).
 


Meso-2,6-diaminoheptanedioate
=
L-lysine
+
CO(2)
Molecule diagrams generated from .mol files obtained from the KEGG ftp site.

Other name(s): Dap decarboxylase. Meso-2,6-diaminoheptanedioate carboxy-lyase.
Cofactor(s): Pyridoxal 5'-phosphate.
 

Pyridoxal 5'-phosphate
Molecule diagrams generated from .mol files obtained from the KEGG ftp site.
Links:   [IntEnz]   [ExPASy]   [KEGG]  

There are 13 PDB entries in enzyme class E.C.4.1.1.20

  PDB code Protein
1hkv
Mycobacterium diaminopimelate dicarboxylase (lysa)
Source: Mycobacterium tuberculosis. Organism_taxid: 83332. Strain: h37rv. Expressed in: escherichia coli. Expression_system_taxid: 562. Other_details: c-term 6-his tag
Chains: A, B (446 residues) CATH domains: 2.40.37.10 3.20.20.10
Bound ligands:   Het Group LYS corresponds to enzyme product L-lysine
  Het Group PLP is 93.00% similar to enzyme cofactor pyridoxal 5'-phosphate
1hkw
Mycobacterium diaminopimelate dicarboxylase (lysa)
Source: Mycobacterium tuberculosis. Organism_taxid: 83332. Strain: h37rv. Expressed in: escherichia coli. Expression_system_taxid: 562. Other_details: c-term 6-his tag
Chains: A, B (446 residues) CATH domains: 2.40.37.10 3.20.20.10
1knw
Crystal structure of diaminopimelate decarboxylase
Source: Escherichia coli. Organism_taxid: 562. Gene: lysa. Expressed in: escherichia coli bl21(de3). Expression_system_taxid: 469008.
Chain: A (421 residues) CATH domains: 2.40.37.10 3.20.20.10
Bound ligand:   Het Group PLP is 93.75% similar to enzyme cofactor pyridoxal
1ko0
Crystal structure of a d,l-lysine complex of diaminopimelate decarboxylase
Source: Escherichia coli. Organism_taxid: 562. Gene: lysa. Expressed in: escherichia coli bl21(de3). Expression_system_taxid: 469008.
Chain: A (419 residues) CATH domains: 2.40.37.10 3.20.20.10
Bound ligands:   Het Group LYS corresponds to enzyme product L-lysine
  Het Group PLP is 93.75% similar to enzyme cofactor pyridoxal
1tuf
Crystal structure of diaminopimelate decarboxylase from m. Jannaschi
Source: Methanocaldococcus jannaschii. Organism_taxid: 2190. Gene: lysa, mj1097. Expressed in: escherichia coli bl21(de3). Expression_system_taxid: 469008.
Chains: A, B (434 residues) CATH domains: 2.40.37.10 3.20.20.10
Bound ligand:   Het Group AZ1 is 53.00% similar to enzyme product L-lysine
1twi
Crystal structure of diaminopimelate decarboxylase from m. J in co-complex with l-lysine
Source: Methanocaldococcus jannaschii. Organism_taxid: 2190. Gene: lysa, mj1097. Expressed in: escherichia coli bl21(de3). Expression_system_taxid: 469008.
Chains: A, B, C, D (434 residues) CATH domains: 2.40.37.10 3.20.20.10
Bound ligands:   Het Group LYS corresponds to enzyme product L-lysine
  Het Group PLP corresponds to enzyme cofactor pyridoxal
2o0t
The three dimensional structure of diaminopimelate decarboxy mycobacterium tuberculosis reveals a tetrameric enzyme orga
Source: Mycobacterium tuberculosis. Organism_taxid: 83332. Strain: h37rv. Gene: lysa. Expressed in: escherichia coli. Expression_system_taxid: 562.
Chains: A, B, C, D (446 residues) CATH domains: 2.40.37.10 3.20.20.10
2p3e
Crystal structure of aq1208 from aquifex aeolicus
Source: Aquifex aeolicus. Organism_taxid: 224324. Strain: vf5. Gene: lysa, aq_1208. Expressed in: escherichia coli. Expression_system_taxid: 562.
Chains: A, B (398 residues) CATH domains: 2.40.37.10 3.20.20.10
2qgh
Crystal structure of diaminopimelate decarboxylase from heli pylori complexed with l-lysine
Source: Helicobacter pylori. Strain: ss1. Gene: lysa. Expressed in: escherichia coli.
Chain: A (394 residues) CATH domains: 2.40.37.10 3.20.20.10
Bound ligands:   Het Group LYS corresponds to enzyme product L-lysine
  Het Group PLP is 93.75% similar to enzyme cofactor pyridoxal
2yxx
Crystal structure analysis of diaminopimelate decarboxylate
Source: Thermotoga maritima. Organism_taxid: 243274. Strain: msb8. Expressed in: escherichia coli. Expression_system_taxid: 562.
Chain: A (385 residues) CATH domains: 2.40.37.10 3.20.20.10
Bound ligand:   Het Group PLP corresponds to enzyme cofactor pyridoxal
3c5q
Crystal structure of diaminopimelate decarboxylase (i148l mu helicobacter pylori complexed with l-lysine
Source: Helicobacter pylori. Strain: ss1. Gene: lysa. Expressed in: escherichia coli.
Chain: A (394 residues) CATH domains: 2.40.37.10 3.20.20.10
Bound ligands:   Het Group LYS corresponds to enzyme product L-lysine
  Het Group PLP is 93.75% similar to enzyme cofactor pyridoxal
3n2b
1.8 angstrom resolution crystal structure of diaminopimelate decarboxylase (lysa) from vibrio cholerae.
Source: Vibrio cholerae. Organism_taxid: 243277. Strain: n16961. Gene: lysa, vc_0125. Expressed in: escherichia coli. Expression_system_taxid: 562.
Chains: A, B, C, D (411 residues) CATH domains: 2.40.37.10 3.20.20.10
3vab
Crystal structure of diaminopimelate decarboxylase from bruc melitensis bound to plp
Source: Brucella melitensis bv. 1. Organism_taxid: 224914. Strain: 16m. Gene: bmei0084, lysa1. Expressed in: escherichia coli. Expression_system_taxid: 562.
Chains: A, B (420 residues) CATH domains: 2.40.37.10 3.20.20.10
Bound ligand:   Het Group EDO is 40.00% similar to enzyme product CO(2)