› 8ono

X-ray diffraction
1.65Å resolution

Modified oligopeptidase B from S. proteamaculans in intermediate conformation with 5 spermine molecule at 1.65 A resolution

Released:
DOI: 10.2210/pdb8ono/pdb
PDB entry 8ono coloured by chain, front view.
PDB entry 8ono coloured by chain, side view.
PDB entry 8ono coloured by chain, top view.
Source organism: Serratia proteamaculans
Entry authors: Petrenko DE, Boyko KM, Nikolaeva AY, Vlaskina AV, Mikhailova AG, Timofeev VI, Rakitina TV

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-109948 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Oligopeptidase B Chain: A
Molecule details ›
Chain: A
Length: 677 amino acids
Theoretical weight: 78.46 KDa
Source organism: Serratia proteamaculans
Expression system: Serratia proteamaculans
UniProt:
  • Canonical: B3VI58 (Residues: 2-677; Coverage: 100%)
Gene names: JKX24_00380, opdB
Sequence domains:

Ligands and Environments

1 bound ligand:
Ligand SPM 5 x SPM
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P212121
Unit cell:
a: 73.09Å b: 100.62Å c: 108.63Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.188 0.186 0.22
Expression system: Serratia proteamaculans

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