› 3pfe

X-ray diffraction
1.5Å resolution

Crystal structure of a M20A metallo peptidase (dapE, lpg0809) from Legionella pneumophila subsp. pneumophila str. philadelphia 1 at 1.50 A resolution

Released:
DOI: 10.2210/pdb3pfe/pdb
PDB entry 3pfe coloured by chain, front view.
PDB entry 3pfe coloured by chain, side view.
PDB entry 3pfe coloured by chain, top view.
Source organism: Legionella pneumophila subsp. pneumophila str. Philadelphia 1
Entry author: Joint Center for Structural Genomics (JCSG)

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-178701 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Peptidase M20 dimerisation domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 472 amino acids
Theoretical weight: 53.31 KDa
Source organism: Legionella pneumophila subsp. pneumophila str. Philadelphia 1
Expression system: Escherichia coli
UniProt:
  • Canonical: Q5ZXC3 (Residues: 1-471; Coverage: 100%)
Gene names: dapE, lpg0809
Sequence domains:
Structure domains:

Ligands and Environments

5 bound ligands:
Ligand ZN 4 x ZN
Ligand CL 8 x CL
Ligand IMD 1 x IMD
Ligand PEG 1 x PEG
Ligand GOL 10 x GOL
1 modified residue:
Ligand MSE 15 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL14-1
Spacegroup: P21212
Unit cell:
a: 59.388Å b: 178.6Å c: 50.803Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.139 0.138 0.163
Expression system: Escherichia coli

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