› 6w4n

X-ray diffraction
2.62Å resolution

Co-crystal structure of Pd_dinase with probe glycine-propargylglycine-AOMK

Released:
DOI: 10.2210/pdb6w4n/pdb
PDB 6w4n coloured by chain and viewed from the front.
PDB 6w4n coloured by chain and viewed from the side.
PDB 6w4n coloured by chain and viewed from the top.
Source organism: Parabacteroides distasonis
Entry authors: Xu JH, Solania A, Wolan DW

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
homo hexamer (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Aminopeptidase Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 401 amino acids
Theoretical weight: 45.9 KDa
Source organism: Parabacteroides distasonis
Expression system: Escherichia coli
UniProt:
  • Canonical: A6LE66 (Residues: 5-5, 23-405; Coverage: 96%)
Gene name: BDI_2249
Sequence domains: Peptidase C1-like family

Ligands and Environments

2 bound ligands:
Ligand SWJ 6 x SWJ
Ligand K 12 x K
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL12-2
Spacegroup: P212121
Unit cell:
a: 105.113Å b: 138.613Å c: 220.13Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.209 0.208 0.229
Expression system: Escherichia coli

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