› 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 entry 6w4n coloured by chain, front view.
PDB entry 6w4n coloured by chain, side view.
PDB entry 6w4n coloured by chain, top view.
Source organism: Parabacteroides distasonis
Entry authors: Xu JH, Solania A, Wolan DW

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-107944 (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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