› 3tx8

X-ray diffraction
2.97Å resolution

Crystal structure of a succinyl-diaminopimelate desuccinylase (ArgE) from Corynebacterium glutamicum ATCC 13032 at 2.97 A resolution

Released:
DOI: 10.2210/pdb3tx8/pdb
PDB entry 3tx8 coloured by chain, front view.
PDB entry 3tx8 coloured by chain, side view.
PDB entry 3tx8 coloured by chain, top view.
Source organism: Corynebacterium glutamicum
Primary publication:
Application of DEN refinement and automated model building to a difficult case of molecular-replacement phasing: the structure of a putative succinyl-diaminopimelate desuccinylase from Corynebacterium glutamicum.
Brunger AT, Das D, Deacon AM, Grant J, Terwilliger TC, Read RJ, Adams PD, Levitt M, Schröder GF
Acta Crystallogr D Biol Crystallogr 68 391-403 (2012)
PMID: 22505259

Function and Biology Details

Reaction catalysed: 
N-succinyl-LL-2,6-diaminoheptanedioate + H(2)O = succinate + LL-2,6-diaminoheptanedioate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-176788 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Succinyl-diaminopimelate desuccinylase Chain: A
Molecule details ›
Chain: A
Length: 369 amino acids
Theoretical weight: 40.27 KDa
Source organism: Corynebacterium glutamicum
Expression system: Escherichia coli
UniProt:
  • Canonical: Q59284 (Residues: 1-369; Coverage: 100%)
Gene names: Cgl1109, cg1260, dapE
Sequence domains:
Structure domains:

Ligands and Environments

2 bound ligands:
Ligand PO4 1 x PO4
Ligand CL 1 x CL
1 modified residue:
Ligand MSE 7 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL9-2
Spacegroup: P6522
Unit cell:
a: 82.901Å b: 82.901Å c: 364.175Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.24 0.238 0.257
Expression system: Escherichia coli

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Citations

1 review citation

Advances, interactions, and future developments in the CNS, Phenix, and Rosetta structural biology software systems.
Adams et al. (2013)
13 other articles

7 mentions without citation

Application of DEN refinement and automated model building to a difficult case of molecular-replacement phasing: the structure of a putative succinyl-diaminopimelate desuccinylase from Corynebacterium glutamicum.
Brunger et al. (2012)
6 more