› 6hf6

X-ray diffraction
2Å resolution

Crystal structure of the Protease 1 (E29A,E60A,E80A) from Pyrococcus horikoshii co-crystallized with Tb-Xo4.

Released:
DOI: 10.2210/pdb6hf6/pdb
PDB entry 6hf6 coloured by chain, front view.
PDB entry 6hf6 coloured by chain, side view.
PDB entry 6hf6 coloured by chain, top view.
Source organism: Pyrococcus horikoshii OT3
Primary publication:
Protein crystal structure determination with the crystallophore, a nucleating and phasing agent.
Engilberge S, Wagner T, Santoni G, Breyton C, Shima S, Franzetti B, Riobé F, Maury O, Girard E
J Appl Crystallogr 52 722-731 (2019)
PMID: 31396026

Function and Biology Details

Reaction catalysed: 
An N(6)-(1-hydroxy-2-oxopropyl)-[protein]-L-lysine + H(2)O = a [protein]-L-lysine + lactate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-129858 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Deglycase PH1704 Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 166 amino acids
Theoretical weight: 18.48 KDa
Source organism: Pyrococcus horikoshii OT3
Expression system: Escherichia coli
UniProt:
  • Canonical: O59413 (Residues: 1-166; Coverage: 100%)
Gene name: PH1704
Sequence domains: DJ-1/PfpI family

Ligands and Environments

3 bound ligands:
Ligand 7MT 3 x 7MT
Ligand MLI 3 x MLI
Ligand TB 4 x TB
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID29
Spacegroup: P41212
Unit cell:
a: 124.62Å b: 124.62Å c: 130.31Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.163 0.162 0.181
Expression system: Escherichia coli

Quick links

Citations

1 review citation

NMR Spectroscopy of supramolecular chemistry on protein surfaces.
Bayer et al. (2020)
7 other articles

2 mentions without citation

A simple and versatile microfluidic device for efficient biomacromolecule crystallization and structural analysis by serial crystallography.
de Wijn et al. (2019)
1 more