5IZU

A new binding site outside the canonical PDZ domain determines the specific interaction between Shank and SAPAP and their function

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.49 Å
  • R-Value Free: 0.251 
  • R-Value Work: 0.183 
  • R-Value Observed: 0.186 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history. 


Literature

A binding site outside the canonical PDZ domain determines the specific interaction between Shank and SAPAP and their function

Zeng, M., Shang, Y., Guo, T., He, Q., Yung, W.H., Liu, K., Zhang, M.

(2016) Proc Natl Acad Sci U S A 113: E3081-E3090

  • DOI: 10.1073/pnas.1523265113
  • Primary Citation of Related Structures:  
    5IZU

  • PubMed Abstract: 

    • Shank and SAPAP (synapse-associated protein 90/postsynaptic density-95-associated protein) are two highly abundant scaffold proteins that directly interact with each other to regulate excitatory synapse development and plasticity. Mutations of SAPAP, but not other reported Shank PDZ domain binders, share a significant overlap on behavioral abnormalities with the mutations of Shank both in patients and in animal models ...

    Shank and SAPAP (synapse-associated protein 90/postsynaptic density-95-associated protein) are two highly abundant scaffold proteins that directly interact with each other to regulate excitatory synapse development and plasticity. Mutations of SAPAP, but not other reported Shank PDZ domain binders, share a significant overlap on behavioral abnormalities with the mutations of Shank both in patients and in animal models. The molecular mechanism governing the exquisite specificity of the Shank/SAPAP interaction is not clear, however. Here we report that a sequence preceding the canonical PDZ domain of Shank, together with the elongated PDZ BC loop, form another binding site for a sequence upstream of the SAPAP PDZ-binding motif, leading to a several hundred-fold increase in the affinity of the Shank/SAPAP interaction. We provide evidence that the specific interaction afforded by this newly identified site is required for Shank synaptic targeting and the Shank-induced synaptic activity increase. Our study provides a molecular explanation of how Shank and SAPAP dosage changes due to their gene copy number variations can contribute to different psychiatric disorders.

    Organizational Affiliation: 

    Division of Life Science, State Key Laboratory of Molecular Neuroscience, Hong Kong University of Science and Technology, Hong Kong, China; Center of Systems Biology and Human Health, School of Science and Institute for Advanced Study, Hong Kong University of Science and Technology, Hong Kong, China mzhang@ust.hk.



Macromolecules
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(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
SH3 and multiple ankyrin repeat domains protein 3A, C139Mus musculusMutation(s): 0 
Gene Names: Shank3, Kiaa1650, Prosap2
UniProt
Find proteins for Q4ACU6 (Mus musculus)
Explore Q4ACU6 
Go to UniProtKB:  Q4ACU6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ4ACU6
Protein Feature View
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  • Reference Sequence

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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
peptide from Disks large-associated protein 3B, D15Mus musculusMutation(s): 0 
Gene Names: Dlgap3, Dap3
UniProt
Find proteins for Q6PFD5 (Mus musculus)
Explore Q6PFD5 
Go to UniProtKB:  Q6PFD5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6PFD5
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.49 Å
  • R-Value Free: 0.251 
  • R-Value Work: 0.183 
  • R-Value Observed: 0.186 
  • Space Group: P 31 1 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 72.824α = 90
b = 72.824β = 90
c = 116.36γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing

Structure Validation

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View more in-depth experimental data

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Research Grants CouncilHong Kong663811
Research Grants CouncilHong Kong663812
Research Grants CouncilHong KongT13-607/12R
Research Grants CouncilHong KongAoE-M09-12
Ministry of Science and Technology of the People's Republic of China (Chinese Ministry of Science and Technology)China2014CB910204

Revision History  (Full details and data files)

  • Version 1.0: 2016-05-18
    Type: Initial release
  • Version 1.1: 2016-06-01
    Changes: Database references
  • Version 1.2: 2016-06-15
    Changes: Database references
  • Version 1.3: 2016-08-24
    Changes: Source and taxonomy