3BZD

Manipulating the coupled folding and binding process drives affinity maturation in a protein-protein complex

• PDB DOI: https://doi.org/10.2210/pdb3BZD/pdb

• Classification: TOXIN
• Organism(s): Mus musculus, Staphylococcus aureus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-01-17 Released: 2009-05-12 
• Deposition Author(s): Cho, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.258 
• R-Value Work: 0.210 
• R-Value Observed: 0.213 

Literature

Manipulating the coupled folding and binding process drives affinity maturation in a protein-protein complex

Cho, S., Swaminathan, C.P., Kerzic, M.C., Guan, R., Yang, J., Kieke, M.C., Andersen, P.S., Krantz, D.M., Mariuzza, R.A., Eric, S.J.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Macromolecule Content

• Total Structure Weight: 39.65 kDa 
• Atom Count: 2,849 
• Modelled Residue Count: 343 
• Deposited Residue Count: 346 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
T cell receptor beta chain 8.2	A	109	Mus musculus	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Enterotoxin type C-3	B	237	Staphylococcus aureus	Mutation(s): 0  Gene Names: entC3
UniProt
Find proteins for P0A0L5 (Staphylococcus aureus) Explore P0A0L5  Go to UniProtKB:  P0A0L5

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth B], D [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.258 
• R-Value Work: 0.210 
• R-Value Observed: 0.213 
• Space Group: P 6₅

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 96.97	α = 90
b = 96.97	β = 90
c = 92.51	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
CrystalClear	data collection
CrystalClear	data reduction
CrystalClear	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-05-12 
Deposition Author(s): Cho, S.

Revision History  

• Version 1.0: 2009-05-12
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-10-30
  Changes: Data collection, Database references, Derived calculations, Structure summary