› 2o0t

X-ray diffraction
2.33Å resolution

The three dimensional structure of diaminopimelate decarboxylase from Mycobacterium tuberculosis reveals a tetrameric enzyme organisation

Released:
DOI: 10.2210/pdb2o0t/pdb
PDB entry 2o0t coloured by chain, front view.
PDB entry 2o0t coloured by chain, side view.
PDB entry 2o0t coloured by chain, top view.
Source organism: Mycobacterium tuberculosis H37Rv
Primary publication:
The three-dimensional structure of diaminopimelate decarboxylase from Mycobacterium tuberculosis reveals a tetrameric enzyme organisation.
Weyand S, Kefala G, Svergun DI, Weiss MS
J Struct Funct Genomics 10 209-17 (2009)
PMID: 19543810

Function and Biology Details

Reaction catalysed: 
Meso-2,6-diaminoheptanedioate = L-lysine + CO(2)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-161662 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Diaminopimelate decarboxylase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 467 amino acids
Theoretical weight: 49.9 KDa
Source organism: Mycobacterium tuberculosis H37Rv
Expression system: Escherichia coli
UniProt:
  • Canonical: P9WIU7 (Residues: 2-447; Coverage: 100%)
Gene names: MTCY373.13, Rv1293, lysA
Sequence domains:
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand SO4 2 x SO4
1 modified residue:
Ligand LLP 4 x LLP

Experiments and Validation Details

Entry percentile scores
X-ray source: EMBL/DESY, HAMBURG BEAMLINE X11
Spacegroup: P21
Unit cell:
a: 75.78Å b: 106.88Å c: 121.93Å
α: 90° β: 104.99° γ: 90°
R-values:
R R work R free
0.192 0.191 0.241
Expression system: Escherichia coli

Quick links

Citations

4 citation in other articles

Evolution of substrate specificity within a diverse family of beta/alpha-barrel-fold basic amino acid decarboxylases: X-ray structure determination of enzymes with specificity for L-arginine and carboxynorspermidine.
Deng et al. (2010)
3 more

6 mentions without citation

Evolutionary trace annotation of protein function in the structural proteome.
Erdin et al. (2010)
5 more