2F3N

Crystal Structure of the native Shank SAM domain.

• PDB DOI: https://doi.org/10.2210/pdb2F3N/pdb

• Classification: STRUCTURAL PROTEIN
• Organism(s): Rattus norvegicus
• Expression System: Escherichia coli BL21
• Mutation(s): Yes 


• Deposited: 2005-11-22 Released: 2006-02-07 
• Deposition Author(s): Baron, M.K., Bowie, J.U., Faham, S.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.251 (Depositor) 
• R-Value Work: 
  0.206 (Depositor) 
• R-Value Observed: 
  0.206 (Depositor) 

Literature

An architectural framework that may lie at the core of the postsynaptic density.

Baron, M.K., Boeckers, T.M., Vaida, B., Faham, S., Gingery, M., Sawaya, M.R., Salyer, D., Gundelfinger, E.D., Bowie, J.U.

(2006) Science 311: 531-535

• PubMed: 16439662 
• DOI: https://doi.org/10.1126/science.1118995
• Primary Citation of Related Structures:  
  2F3N, 2F44


• PubMed Abstract: 
  

  The postsynaptic density (PSD) is a complex assembly of proteins associated with the postsynaptic membrane that organizes neurotransmitter receptors, signaling pathways, and regulatory elements within a cytoskeletal matrix. Here we show that the sterile alpha motif domain of rat Shank3/ProSAP2, a master scaffolding protein located deep within the PSD, can form large sheets composed of helical fibers stacked side by side. Zn2+, which is found in high concentrations in the PSD, binds tightly to Shank3 and may regulate assembly. Sheets of the Shank protein could form a platform for the construction of the PSD complex.

---

Organizational Affiliation: 

Department of Chemistry and Biochemistry, Molecular Biology Institute, University of California, Los Angeles, 611 Charles E. Young Drive East, Los Angeles, CA 90095-1570, USA.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 3 assigned by authors.

Macromolecule Content

• Total Structure Weight: 27.28 kDa 
• Atom Count: 1,755 
• Modelled Residue Count: 191 
• Deposited Residue Count: 228 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
SH3 and multiple ankyrin repeat domains 3	A, B, C	76	Rattus norvegicus	Mutation(s): 1  Gene Names: Shank3
UniProt
Find proteins for Q9JLU4 (Rattus norvegicus) Explore Q9JLU4  Go to UniProtKB:  Q9JLU4

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free:  0.251 (Depositor) 
• R-Value Work:  0.206 (Depositor) 
• R-Value Observed: 0.206 (Depositor) 

Space Group: P 6₅

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 104.715	α = 90
b = 104.715	β = 90
c = 40.188	γ = 120

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
MLPHARE	phasing
CNS	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-02-07 
Deposition Author(s): Baron, M.K., Bowie, J.U., Faham, S.

Revision History  

• Version 1.0: 2006-02-07
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2021-10-20
  Changes: Database references
• Version 1.4: 2024-02-14
  Changes: Data collection