8RJ8 | pdb_00008rj8

CytK nanopore mutant

• PDB DOI: https://doi.org/10.2210/pdb8RJ8/pdb

• Classification: TRANSLATION
• Organism(s): Bacillus cereus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-12-20 Released: 2025-01-01 
• Deposition Author(s): Whittaker, J.J., Sauciuc, A., Guskov, A.
• Funding Organization(s): Netherlands Organisation for Scientific Research (NWO)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 4.32 Å
• R-Value Free: 
  0.407 (Depositor), 0.407 (DCC) 
• R-Value Work: 
  0.322 (Depositor), 0.322 (DCC) 

Starting Model: experimental

Literature

Uniformly narrow and non-sticky nanopores are required for the single-file translocation of proteins

Sauciuc, A., Whittaker, J.J., Tadema, M.J., Tych, K., Guskov, A., Maglia, G.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C7  (Explore in 3D)
Global Stoichiometry: Homo 7-mer - A7 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: homology

Macromolecule Content 

• Total Structure Weight: 239.52 kDa 
• Atom Count: 15,699 
• Modeled Residue Count: 2,012 
• Deposited Residue Count: 2,170 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytotoxin K	A, B, C, D, E, F, G	310	Bacillus cereus	Mutation(s): 0  Gene Names: cytK-1
UniProt
Find proteins for Q09KJ1 (Bacillus cereus) Explore Q09KJ1  Go to UniProtKB:  Q09KJ1

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 4.32 Å
• R-Value Free:  0.407 (Depositor), 0.407 (DCC) 
• R-Value Work:  0.322 (Depositor), 0.322 (DCC) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 103.229	α = 90
b = 186.222	β = 115.85
c = 104.532	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-01-01 
Deposition Author(s): Whittaker, J.J., Sauciuc, A., Guskov, A.

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Funding Organization	Location	Grant Number
Netherlands Organisation for Scientific Research (NWO)	Netherlands	192.068

Revision History  

• Version 1.0: 2025-01-01
  Type: Initial release