5JXB

PSD-95 extended PDZ3 in complex with SynGAP PBM


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.287 
  • R-Value Work: 0.241 
  • R-Value Observed: 0.241 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Phase Transition in Postsynaptic Densities Underlies Formation of Synaptic Complexes and Synaptic Plasticity.

Zeng, M.Shang, Y.Araki, Y.Guo, T.Huganir, R.L.Zhang, M.

(2016) Cell 166: 1163-1175.e12

  • DOI: 10.1016/j.cell.2016.07.008
  • Primary Citation of Related Structures:  
    5JXB, 5JXC

  • PubMed Abstract: 
  • Postsynaptic densities (PSDs) are membrane semi-enclosed, submicron protein-enriched cellular compartments beneath postsynaptic membranes, which constantly exchange their components with bulk aqueous cytoplasm in synaptic spines. Formation and activity-dependent modulation of PSDs is considered as one of the most basic molecular events governing synaptic plasticity in the nervous system ...

    Postsynaptic densities (PSDs) are membrane semi-enclosed, submicron protein-enriched cellular compartments beneath postsynaptic membranes, which constantly exchange their components with bulk aqueous cytoplasm in synaptic spines. Formation and activity-dependent modulation of PSDs is considered as one of the most basic molecular events governing synaptic plasticity in the nervous system. In this study, we discover that SynGAP, one of the most abundant PSD proteins and a Ras/Rap GTPase activator, forms a homo-trimer and binds to multiple copies of PSD-95. Binding of SynGAP to PSD-95 induces phase separation of the complex, forming highly concentrated liquid-like droplets reminiscent of the PSD. The multivalent nature of the SynGAP/PSD-95 complex is critical for the phase separation to occur and for proper activity-dependent SynGAP dispersions from the PSD. In addition to revealing a dynamic anchoring mechanism of SynGAP at the PSD, our results also suggest a model for phase-transition-mediated formation of PSD.


    Organizational Affiliation

    Division of Life Science, State Key Laboratory of Molecular Neuroscience, Hong Kong University of Science and Technology, Clear Water Bay, Kowloon, Hong Kong, China; Center of Systems Biology and Human Health, Hong Kong University of Science and Technology, Clear Water Bay, Kowloon, Hong Kong, China. Electronic address: mzhang@ust.hk.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Disks large homolog 4,SynGAPA, B [auth C]123Homo sapiensMus musculus
This entity is chimeric
Mutation(s): 0 
Gene Names: DLG4PSD95Syngap1
UniProt & NIH Common Fund Data Resources
Find proteins for P78352 (Homo sapiens)
Explore P78352 
Go to UniProtKB:  P78352
PHAROS:  P78352
Find proteins for J3QQ18 (Mus musculus)
Explore J3QQ18 
Go to UniProtKB:  J3QQ18
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.287 
  • R-Value Work: 0.241 
  • R-Value Observed: 0.241 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 70.286α = 90
b = 71.094β = 90
c = 115.791γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
PHENIXphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2016-05-13 
  • Released Date: 2016-09-28 
  • Deposition Author(s): Shang, Y., Zhang, M.

Funding OrganizationLocationGrant Number
RGCHong Kong663811
RGCHong Kong663812
RGCHong KongT13-607/12R
RGCHong KongAoE-M09-12
the Minister of Science and Technology of ChinaChina2014CB910204

Revision History  (Full details and data files)

  • Version 1.0: 2016-09-28
    Type: Initial release