8J0Y | pdb_00008j0y

Crystal structure of horse spleen L-ferritin at 20deg Celsius.

• PDB DOI: https://doi.org/10.2210/pdb8J0Y/pdb

• Classification: METAL BINDING PROTEIN
• Organism(s): Equus caballus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-04-12 Released: 2023-05-03 
• Deposition Author(s): Maity, B., Tian, J., Abe, S., Ueno, T.
• Funding Organization(s): Japan Society for the Promotion of Science (JSPS)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 
  0.190 (Depositor), 0.201 (DCC) 
• R-Value Work: 
  0.169 (Depositor), 0.182 (DCC) 

Starting Model: experimental

Literature

Atomic-Level Insights into a Unique Semi-Clathrate Hydrate Formed in a Confined Environment of Porous Protein Crystal.

Maity, B., Tian, J., Furuta, T., Abe, S., Ueno, T.

(2023) Cryst Growth Des 23: 7448-7458

• DOI: https://doi.org/10.1021/acs.cgd.3c00880

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)

Biological Assembly Evidence: native gel electrophoresis

Macromolecule Content 

• Total Structure Weight: 20.44 kDa 
• Atom Count: 1,590 
• Modeled Residue Count: 173 
• Deposited Residue Count: 174 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ferritin light chain	A [auth X]	174	Equus caballus	Mutation(s): 0  Gene Names: FTL
UniProt
Find proteins for P02791 (Equus caballus) Explore P02791  Go to UniProtKB:  P02791

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CD	D [auth X], E [auth X], F [auth X]	CADMIUM ION Cd WLZRMCYVCSSEQC-UHFFFAOYSA-N
SO4	B [auth X], C [auth X]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
CL	G [auth X]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free:  0.190 (Depositor), 0.201 (DCC) 
• R-Value Work:  0.169 (Depositor), 0.182 (DCC) 

Space Group: F 4 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 183.529	α = 90
b = 183.529	β = 90
c = 183.529	γ = 90

Software Package:

Software Name	Purpose
CrysalisPro	data collection
CrysalisPro	data reduction
Aimless	data scaling
MOLREP	phasing
REFMAC	refinement
Coot	model building

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2023-05-03 
Deposition Author(s): Maity, B., Tian, J., Abe, S., Ueno, T.

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Funding Organization	Location	Grant Number
Japan Society for the Promotion of Science (JSPS)	Japan	--

Revision History  

• Version 1.0: 2023-05-03
  Type: Initial release
  
• Version 1.1: 2023-11-15
  Changes: Data collection, Database references