8F6Q

CryoEM structure of designed modular protein oligomer C8-71


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


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.

(2023) bioRxiv 

  • DOI: https://doi.org/10.1101/2023.03.14.532666
  • Primary Citation of Related Structures:  
    8F6Q

  • PubMed Abstract: 

    Growth factors and cytokines signal by binding to the extracellular domains of their receptors and drive association and transphosphorylation of the receptor intracellular tyrosine kinase domains, initiating downstream signaling cascades. To enable systematic exploration of how receptor valency and geometry affects signaling outcomes, we designed cyclic homo-oligomers with up to 8 subunits using repeat protein building blocks that can be modularly extended. By incorporating a de novo designed fibroblast growth-factor receptor (FGFR) binding module into these scaffolds, we generated a series of synthetic signaling ligands that exhibit potent valency- and geometry-dependent Ca2+ release and MAPK pathway activation. The high specificity of the designed agonists reveal distinct roles for two FGFR splice variants in driving endothelial and mesenchymal cell fates during early vascular development. The ability to incorporate receptor binding domains and repeat extensions in a modular fashion makes our designed scaffolds broadly useful for probing and manipulating cellular signaling pathways.


  • Organizational Affiliation

    Department of Biochemistry, University of Washington, Seattle, WA 98195, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
C8-71
A, B, C, D, E
A, B, C, D, E, F, G, H
213synthetic constructMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC
MODEL REFINEMENTPHENIX1.16

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR35GM128777
National Institutes of Health/National Institute on Aging (NIH/NIA)United StatesR01AG063845

Revision History  (Full details and data files)

  • Version 1.0: 2023-11-29
    Type: Initial release
  • Version 1.1: 2024-06-12
    Changes: Database references
  • Version 1.2: 2024-06-19
    Changes: Database references