6RZP

Multicrystal structure of Proteinase K at room temperature using a multilayer monochromator.

• PDB DOI: https://doi.org/10.2210/pdb6RZP/pdb

• Classification: HYDROLASE
• Organism(s): Parengyodontium album
• Expression System: Parengyodontium album
• Mutation(s): No 


• Deposited: 2019-06-13 Released: 2019-07-17 
• Deposition Author(s): Sandy, J., Sandy, E., Sanchez-Weatherby, J., Mikolajek, H.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.161 
• R-Value Work: 0.105 
• R-Value Observed: 0.111 

Literature

Protein-to-structure pipeline for ambient-temperature crystallography at VMXi

Mikolajek, H., Sanchez-Weatherby, J., Sandy, J., Gildea, R.G., Campeotto, I., Cheruvara, H., Clarke, J.D., Foster, T., Fujii, S., Paulsen, I.T., Shah, B.S., Hough, M.A.

(2023) IUCrJ 

• DOI: https://doi.org/10.1107/S2052252523003810

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 29.34 kDa 
• Atom Count: 2,251 
• Modelled Residue Count: 279 
• Deposited Residue Count: 279 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Proteinase K	A	279	Parengyodontium album	Mutation(s): 0  Gene Names: PROK EC: 3.4.21.64
UniProt
Find proteins for P06873 (Parengyodontium album) Explore P06873  Go to UniProtKB:  P06873

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth A], D [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL	B [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
CA	E [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N
CL	F [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M
NA	G [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.161 
• R-Value Work: 0.105 
• R-Value Observed: 0.111 
• Space Group: P 4₃ 2₁ 2
• Diffraction Data: https://doi.org/10.5281/zenodo.3245006

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 68.368	α = 90
b = 68.368	β = 90
c = 103.978	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
DIALS	data reduction
DIALS	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2019-07-17 
Deposition Author(s): Sandy, J., Sandy, E., Sanchez-Weatherby, J., Mikolajek, H.

Revision History  

• Version 1.0: 2019-07-17
  Type: Initial release
  
• Version 1.1: 2023-05-17
  Changes: Database references
• Version 1.2: 2024-02-07
  Changes: Data collection, Refinement description