8AH8

Crystal Structure of the third PDZ domain of PSD-95 protein in the space group P3121 at pH 3.7

• PDB DOI: https://doi.org/10.2210/pdb8AH8/pdb

• Classification: PROTEIN BINDING
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2022-07-20 Released: 2023-03-08 
• Deposition Author(s): Camara-Artigas, A., Salinas Garcia, M.C.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 0.210 
• R-Value Work: 0.188 
• R-Value Observed: 0.189 

Literature

pH-Driven Polymorphic Behaviour of the Third PDZ Domain of PSD95: The Role of Electrostatic Interactions

Salinas-Garcia, M.C., Plaza-Garrido, M., Gavira, J.A., Murciano-Calles, J., Andujar-Sanchez, M., Ortiz-Salmeron, E., Martinez, J.C., Camara-Artigas, A.

(2023) Crystals (Basel) 

• DOI: https://doi.org/10.3390/cryst13020218

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: light scattering

Macromolecule Content

• Total Structure Weight: 11.13 kDa 
• Atom Count: 808 
• Modelled Residue Count: 97 
• Deposited Residue Count: 104 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
cDNA FLJ50577, highly similar to Discs large homolog 4	A	104	Homo sapiens	Mutation(s): 1
UniProt & NIH Common Fund Data Resources
Find proteins for P78352 (Homo sapiens) Explore P78352  Go to UniProtKB:  P78352
PHAROS:  P78352 GTEx:  ENSG00000132535

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
SNN	A	L-PEPTIDE LINKING	C4 H6 N2 O2		ASN

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 0.210 
• R-Value Work: 0.188 
• R-Value Observed: 0.189 
• Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 35.628	α = 90
b = 35.628	β = 90
c = 110.472	γ = 120

Software Package:

Software Name	Purpose
XDS	data reduction
Aimless	data scaling
PHASER	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-03-08 
Deposition Author(s): Camara-Artigas, A., Salinas Garcia, M.C.

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Funding Organization	Location	Grant Number
Other government	Spain	UAL-FEDER-UAL18-BIO-B005-B

Revision History  

• Version 1.0: 2023-03-08
  Type: Initial release
  
• Version 2.0: 2023-11-15
  Changes: Atomic model, Data collection, Derived calculations
• Version 2.1: 2024-02-07
  Changes: Refinement description