36OU | pdb_000036ou

Room-temperature multiconformer model of PSD-95 PDZ3-CRIPT

• PDB DOI: https://doi.org/10.2210/pdb36OU/pdb

• Classification: PEPTIDE BINDING PROTEIN
• Organism(s): Rattus norvegicus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2026-06-24 Released: 2026-11-04 
• Deposition Author(s): Wang, H.K., Hekstra, D.R., White, K.I.
• Funding Organization(s): National Science Foundation (NSF, United States), National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.35 Å
• R-Value Free: 
  0.147 (Depositor), 0.149 (DCC) 
• R-Value Work: 
  0.122 (Depositor), 0.122 (DCC) 
• R-Value Observed: 
  0.124 (Depositor) 

Starting Model: experimental

Literature

Symmetry Breaking under Vectorial Perturbations in Macromolecular X-ray Crystallography.

Wang, H.K., Greisman, J.B., Dalton, K.M., Hewitt, R.A., White, K.I., Hekstra, D.R.

(2026) bioRxiv 

• PubMed: 42856210 
• DOI: https://doi.org/10.64898/2026.09.28.753211
• Primary Citation Related Structures: 
  36OR, 36OU


• PubMed Abstract: 
  

  Proteins are molecular machines whose dynamics govern their function. Using time-resolved crystallography, the basis of protein mechanics can be uncovered by physical perturbation on protein crystals. Perturbations are often vector fields that, in crystals, break symmetry. Lacking existing tools for analyzing symmetry breaking, we built open-source software to do so. We applied this method to three time-resolved crystallography experiments and analyzed the effect of vectorial perturbations on macromolecular crystal structure. We demonstrate that our method can handle symmetry reduction in all 65 Sohncke space groups.

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Organizational Affiliation: 
• Department of Molecular and Cellular Biology, Harvard University, Cambridge, MA 02138, USA.
Graduate Program in Biophysics, Harvard University, Boston, MA 02115, USA.
Current address: D. E. Shaw Research New York, NY 10036, USA.
Linac Coherent Light Source, SLAC National Accelerator Laboratory, Menlo Park, 94025, CA, USA.
Department of Biology, New York University, New York, NY 10003.
Department of Molecular and Cellular Physiology, Department of Neurology and Neurological Sciences, Department of Structural Biology, Department of Photon Science, Howard Hughes Medical Institute, Stanford University, Stanford, CA, 94305.
John A. Paulson School of Engineering and Applied Sciences, Harvard University, Cambridge, MA 02138.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 13.81 kDa 
• Atom Count: 1,616 
• Modeled Residue Count: 126 
• Deposited Residue Count: 128 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Disks large homolog 4	A	119	Rattus norvegicus	Mutation(s): 0  Gene Names: Dlg4, Dlgh4, Psd95
UniProt
Find proteins for P31016 (Rattus norvegicus) Explore P31016  Go to UniProtKB:  P31016

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Cysteine-rich PDZ-binding protein	B	9	Rattus norvegicus	Mutation(s): 0
UniProt
Find proteins for Q792Q4 (Rattus norvegicus) Explore Q792Q4  Go to UniProtKB:  Q792Q4

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.35 Å
• R-Value Free:  0.147 (Depositor), 0.149 (DCC) 
• R-Value Work:  0.122 (Depositor), 0.122 (DCC) 
• R-Value Observed: 0.124 (Depositor) 

Space Group: P 4₁ 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 90.733	α = 90
b = 90.733	β = 90
c = 90.733	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
SCALEPACK	data scaling
DENZO	data reduction
PHENIX	phasing
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2026-11-04 
Deposition Author(s): Wang, H.K., Hekstra, D.R., White, K.I.

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Funding Organization	Location	Grant Number
National Science Foundation (NSF, United States)	United States	DGE2140743
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	DP2-GM141000

Revision History  

• Version 1.0: 2026-11-04
  Type: Initial release