Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 18.87 kDa 
• Atom Count: 1500 
• Modelled Residue Count: 156 
• Deposited Residue Count: 159 
• Unique protein chains: 1

4CVR

Structure of Apobacterioferritin Y25F variant

• PDB DOI: 10.2210/pdb4CVR/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Escherichia coli
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2014-03-29 Released: 2014-08-20 
• Deposition Author(s): Hingorani, K., Pace, R., Whitney, S., Murray, J.W., Wydrzynski, T., Cheah, M.H., Smith, P., Hillier, W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.10 Å
• R-Value Free: 0.165 
• R-Value Work: 0.134 
• R-Value Observed: 0.135 

Literature

Photo-Oxidation of Tyrosine in a Bio-Engineered Bacterioferritin 'Reaction Centre'-A Protein Model for Artificial Photosynthesis.

Hingorani, K., Pace, R., Whitney, S., Murray, J.W., Smith, P., Cheah, M.H., Wydrzynski, T., Hillier, W.

(2014) Biochim Biophys Acta 1837: 1821

• PubMed: 25107631 
• DOI: 10.1016/j.bbabio.2014.07.019
• Primary Citation of Related Structures:  
  4CVP, 4CVR, 4CVS, 4CVT


• PubMed Abstract: 
  

The photosynthetic reaction centre (RC) is central to the conversion of solar energy into chemical energy and is a model for bio-mimetic engineering approaches to this end. We describe bio-engineering of a Photosystem II (PSII) RC inspired peptide model, building on our earlier studies. A non-photosynthetic haem containing bacterioferritin (BFR) from Escherichia coli that expresses as a homodimer was used as a protein scaffold, incorporating redox-active cofactors mimicking those of PSII. Desirable properties include: a di-nuclear metal binding site which provides ligands for bivalent metals, a hydrophobic pocket at the dimer interface which can bind a photosensitive porphyrin and presence of tyrosine residues proximal to the bound cofactors, which can be utilised as efficient electron-tunnelling intermediates. Light-induced electron transfer from proximal tyrosine residues to the photo-oxidised ZnCe6(•+), in the modified BFR reconstituted with both ZnCe6 and Mn(II), is presented. Three site-specific tyrosine variants (Y25F, Y58F and Y45F) were made to localise the redox-active tyrosine in the engineered system. The results indicate that: presence of bound Mn(II) is necessary to observe tyrosine oxidation in all BFR variants; Y45 the most important tyrosine as an immediate electron donor to the oxidised ZnCe6(•+) and that Y25 and Y58 are both redox-active in this system, but appear to function interchangebaly. High-resolution (2.1Å) crystal structures of the tyrosine variants show that there are no mutation-induced effects on the overall 3-D structure of the protein. Small effects are observed in the Y45F variant. Here, the BFR-RC represents a protein model for artificial photosynthesis.

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Organizational Affiliation: 

Building 134, Linnaeus Way, Research School of Biology, The Australian National University, ACT 0200, Australia.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
BACTERIOFERRITIN	A	159	Escherichia coli	Mutation(s): 3  EC: 1.16.3.1
UniProt
Find proteins for P0ABD3 (Escherichia coli (strain K12)) Explore P0ABD3  Go to UniProtKB:  P0ABD3

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	B [auth A], C [auth A], D [auth A], E [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.10 Å
• R-Value Free: 0.165 
• R-Value Work: 0.134 
• R-Value Observed: 0.135 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 104.38	α = 90
b = 27.95	β = 119.37
c = 56.71	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2014-03-29 
• Released Date: 2014-08-20 
Deposition Author(s): Hingorani, K., Pace, R., Whitney, S., Murray, J.W., Wydrzynski, T., Cheah, M.H., Smith, P., Hillier, W.

Revision History  

• Version 1.0: 2014-08-20
  Type: Initial release
  
• Version 1.1: 2014-09-10
  Changes: Database references