7ZPH | pdb_00007zph

Crystal structure of Pizza6-TNK-RSH with Silicotungstic Acid (STA) polyoxometalate

• PDB DOI: https://doi.org/10.2210/pdb7ZPH/pdb

• Classification: UNKNOWN FUNCTION
• Organism(s): synthetic construct
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2022-04-27 Released: 2023-05-10 
• Deposition Author(s): Wouters, S.M.L., Kamata, K., Takahashi, K., Vandebroek, L., Parac-Vogt, T.N., Tame, J.R.H., Voet, A.R.D.
• Funding Organization(s): Research Foundation - Flanders (FWO)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.66 Å
• R-Value Free: 
  0.224 (Depositor), 0.230 (DCC) 
• R-Value Work: 
  0.204 (Depositor), 0.210 (DCC) 
• R-Value Observed: 
  0.205 (Depositor) 

Starting Model: experimental

Literature

Mutational study of a symmetry matched protein-polyoxometalate interface

Wouters, S., Kamata, K., Takahashi, K., Vandebroek, L., Parac-Vogt, T.N., Tame, J.R.H., Voet, A.R.D.

To be published.

Biological Assembly 1  

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

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

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 28.88 kDa 
• Atom Count: 2,080 
• Modelled Residue Count: 243 
• Deposited Residue Count: 256 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Pizza6-TNK-RSH	A	256	synthetic construct	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SIW (Subject of Investigation/LOI)	B [auth A]	Keggin (STA) O40 Si W12 LFGROBKNYNLKMF-UHFFFAOYSA-B

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.66 Å
• R-Value Free:  0.224 (Depositor), 0.230 (DCC) 
• R-Value Work:  0.204 (Depositor), 0.210 (DCC) 
• R-Value Observed: 0.205 (Depositor) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 70.19	α = 90
b = 70.19	β = 90
c = 85.662	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing
PDB_EXTRACT	data extraction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-05-10 
Deposition Author(s): Wouters, S.M.L., Kamata, K., Takahashi, K., Vandebroek, L., Parac-Vogt, T.N., Tame, J.R.H., Voet, A.R.D.

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Funding Organization	Location	Grant Number
Research Foundation - Flanders (FWO)	Belgium	1S89918N
Research Foundation - Flanders (FWO)	Belgium	G0F9316N
Research Foundation - Flanders (FWO)	Belgium	G051917N

Revision History  

• Version 1.0: 2023-05-10
  Type: Initial release
  
• Version 1.1: 2024-02-07
  Changes: Data collection, Refinement description