› 6d5r

X-ray diffraction
2Å resolution

Hexagonal thermolysin cryocooled to 100 K with 50% xylose as cryoprotectant

Released:
DOI: 10.2210/pdb6d5r/pdb
PDB entry 6d5r coloured by chain, front view.
PDB entry 6d5r coloured by chain, side view.
PDB entry 6d5r coloured by chain, top view.
Source organism: Bacillus thermoproteolyticus
Primary publication:
The impact of cryosolution thermal contraction on proteins and protein crystals: volumes, conformation and order.
Juers DH, Farley CA, Saxby CP, Cotter RA, Cahn JKB, Holton-Burke RC, Harrison K, Wu Z
OpenAccess logo Acta Crystallogr D Struct Biol 74 922-938 (2018)
PMID: 30198901

Function and Biology Details

Reaction catalysed: 
Preferential cleavage: -|-Leu > -|-Phe.
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-524350 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Thermolysin Chain: A
Molecule details ›
Chain: A
Length: 316 amino acids
Theoretical weight: 34.36 KDa
Source organism: Bacillus thermoproteolyticus
UniProt:
  • Canonical: P00800 (Residues: 233-548; Coverage: 61%)
Gene name: npr
Sequence domains:
Structure domains:

Ligands and Environments

5 bound ligands:
Ligand VAL 1 x VAL
Ligand LYS 1 x LYS
Ligand ZN 1 x ZN
Ligand CA 4 x CA
Ligand XYP 4 x XYP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: Agilent SuperNova
Spacegroup: P6122
Unit cell:
a: 92.92Å b: 92.92Å c: 130.122Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.156 0.154 0.205

Quick links

Citations

3 citation in other articles

The low-cost Shifter microscope stage transforms the speed and robustness of protein crystal harvesting.
Wright et al. (2021)
2 more

1 mention without citation

The impact of cryosolution thermal contraction on proteins and protein crystals: volumes, conformation and order.
Juers et al. (2018)