9EXK

Scalable protein design using hallucination in a relaxed sequence space

• PDB DOI: https://doi.org/10.2210/pdb9EXK/pdb
• EM Map EMD-50040: EMDB EMDataResource

• Classification: DE NOVO PROTEIN
• Organism(s): synthetic construct
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-04-08 Released: 2024-10-16 
• Deposition Author(s): Frank, C.J., Dietz, H.
• Funding Organization(s): European Research Council (ERC), Germanys Excellence Strategy

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.36 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Model: in silico

Literature

Efficient and scalable protein design using a relaxed sequence space

Frank, C.J., Dietz, H.

(2024) Science 

• DOI: https://doi.org/10.1126/science.adq1741

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: electron microscopy

Macromolecule Content

• Total Structure Weight: 115.74 kDa 
• Atom Count: 8,078 
• Modelled Residue Count: 1,000 
• Deposited Residue Count: 1,012 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
De novo designed protein K12	A	1,012	synthetic construct	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.36 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	dev_5240

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-10-16 
Deposition Author(s): Frank, C.J., Dietz, H.

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Funding Organization	Location	Grant Number
European Research Council (ERC)	European Union	GA#101018465
Germanys Excellence Strategy	Germany	TUM Innovation Network Projekt RISE

Revision History  

• Version 1.0: 2024-10-16
  Type: Initial release