8F6R

CryoEM structure of designed modular protein oligomer C6-79

• PDB DOI: https://doi.org/10.2210/pdb8F6R/pdb
• EM Map EMD-28889: EMDB EMDataResource

• Classification: DE NOVO PROTEIN
• Organism(s): synthetic construct
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2022-11-17 Released: 2023-11-29 
• Deposition Author(s): Redler, R.L., Edman, N.I., Baker, D., Ekiert, D., Bhabha, G.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), National Institutes of Health/National Institute on Aging (NIH/NIA)

---

Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 4.00 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Modulation of FGF pathway signaling and vascular differentiation using designed oligomeric assemblies

Edman, N.I., Redler, R.L., Phal, A., Schlichthaerle, T., Srivatsan, S.R., Etemadi, A., An, S.J., Favor, A., Ehnes, D., Li, Z., Praetorius, F., Gordon, M., Yang, W., Coventry, B., Hicks, D.R., Cao, L., Bethel, N., Heine, P., Murray, A., Gerben, S., Carter, L., Miranda, M., Negahdari, B., Lee, S., Trapnell, C., Stewart, L., Ekiert, D.C., Schlessinger, J., Shendure, J., Bhabha, G., Ruohola-Baker, H., Baker, D.

(2024) Cell 187: 1-16

• DOI: https://doi.org/10.1016/j.cell.2024.05.025

Biological Assembly 1  

Global Symmetry: Cyclic - C6  (Explore in 3D)
Global Stoichiometry: Homo 6-mer - A6 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: SAXS, gel filtration, light scattering

Macromolecule Content

• Total Structure Weight: 161.31 kDa 
• Atom Count: 10,290 
• Modelled Residue Count: 1,314 
• Deposited Residue Count: 1,446 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
De novo designed oligomeric protein C6-79	A, B, C, D, E, F	241	synthetic construct	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 4.00 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.16
RECONSTRUCTION	cryoSPARC

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-11-29 
Deposition Author(s): Redler, R.L., Edman, N.I., Baker, D., Ekiert, D., Bhabha, G.

---

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R35GM128777
National Institutes of Health/National Institute on Aging (NIH/NIA)	United States	R01AG063845

Revision History  

• Version 1.0: 2023-11-29
  Type: Initial release
  
• Version 1.1: 2024-06-12
  Changes: Database references