9BYE | pdb_00009bye

Nanoparticle Crystal Structure of a Thermostabilized Mutant E.coli Ferritin ECFTNA

• PDB DOI: https://doi.org/10.2210/pdb9BYE/pdb

• Classification: FLAVOPROTEIN
• Organism(s): Escherichia coli
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-05-23 Released: 2025-11-26 
• Deposition Author(s): Seraj, N., Cappelli, L., Wahome, N., Cinelli, P., Fabiola, G., Cartocci, E., Harshbarger, W., Delany, I., Cozzi, R.
• Funding Organization(s): Other private

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 
  0.201 (Depositor), 0.201 (DCC) 
• R-Value Work: 
  0.178 (Depositor), 0.179 (DCC) 
• R-Value Observed: 
  0.179 (Depositor) 

Starting Model: experimental

Literature

In silico Self-assembling Protein Nanoparticles Optimization for Protein Antigen display

Cappelli, L., Wahome, N., Cinelli, P., Giusti, F., Seraj, N., Cartocci, E., Harshbarger, W., Delany, I., Cozzi, R.

To be published.

Biological Assembly 1  

Global Symmetry: Octahedral - O  (Explore in 3D)
Global Stoichiometry: Homo 24-mer - A24 

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

Macromolecule Content 

• Total Structure Weight: 19.05 kDa 
• Atom Count: 1,528 
• Modeled Residue Count: 163 
• Deposited Residue Count: 163 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Bacterial non-heme ferritin	A	163	Escherichia coli	Mutation(s): 0  Gene Names: ftnA, Z2960, ECs2613 EC: 1.16.3.2
UniProt
Find proteins for P0A998 (Escherichia coli (strain K12)) Explore P0A998  Go to UniProtKB:  P0A998

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free:  0.201 (Depositor), 0.201 (DCC) 
• R-Value Work:  0.178 (Depositor), 0.179 (DCC) 
• R-Value Observed: 0.179 (Depositor) 

Space Group: F 4 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 180.373	α = 90
b = 180.373	β = 90
c = 180.373	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data scaling
PHASER	phasing
Coot	model building
HKL-2000	data reduction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-11-26 
Deposition Author(s): Seraj, N., Cappelli, L., Wahome, N., Cinelli, P., Fabiola, G., Cartocci, E., Harshbarger, W., Delany, I., Cozzi, R.

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Funding Organization	Location	Grant Number
Other private	United States	--

Revision History  

• Version 1.0: 2025-11-26
  Type: Initial release