2JIL | pdb_00002jil

Crystal structure of 2nd PDZ domain of glutamate receptor interacting protein-1 (GRIP1)

• PDB DOI: https://doi.org/10.2210/pdb2JIL/pdb

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


• Deposited: 2007-06-28 Released: 2007-07-10 
• Deposition Author(s): Tickle, J., Elkins, J., Pike, A.C.W., Cooper, C., Salah, E., Papagrigoriou, E., von Delft, F., Edwards, A., Arrowsmith, C.H., Weigelt, J., Sundstrom, M., Doyle, D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 
  0.228 (Depositor), 0.308 (DCC) 
• R-Value Work: 
  0.189 (Depositor) 
• R-Value Observed: 
  0.192 (Depositor) 

Starting Models: experimental

Literature

Crystal Structure of 2Nd Pdz Domain of Glutamate Receptor Interacting Protein-1 (Grip1)

Tickle, J., Elkins, J., Pike, A.C.W., Cooper, C., Salah, E., Papagrigoriou, E., von Delft, F., Edwards, A., Arrowsmith, C.H., Weigelt, J., Sundstrom, M., Doyle, D.

To be published.

Biological Assembly 1  

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

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

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PQS (software)

Macromolecule Content 

• Total Structure Weight: 21.16 kDa 
• Atom Count: 1,624 
• Modeled Residue Count: 192 
• Deposited Residue Count: 194 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GLUTAMATE RECEPTOR INTERACTING PROTEIN-1	A, B	97	Homo sapiens	Mutation(s): 1
UniProt & NIH Common Fund Data Resources
Find proteins for Q9Y3R0 (Homo sapiens) Explore Q9Y3R0  Go to UniProtKB:  Q9Y3R0
PHAROS:  Q9Y3R0 GTEx:  ENSG00000155974

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	E [auth A], F [auth B], G [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
SCN	C [auth A], D [auth A]	THIOCYANATE ION C N S ZMZDMBWJUHKJPS-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free:  0.228 (Depositor), 0.308 (DCC) 
• R-Value Work:  0.189 (Depositor) 
• R-Value Observed: 0.192 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 56.06	α = 90
b = 61.057	β = 90
c = 96.397	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-07-10 
Deposition Author(s): Tickle, J., Elkins, J., Pike, A.C.W., Cooper, C., Salah, E., Papagrigoriou, E., von Delft, F., Edwards, A., Arrowsmith, C.H., Weigelt, J., Sundstrom, M., Doyle, D.

Revision History  

• Version 1.0: 2007-07-10
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2018-01-24
  Changes: Database references
• Version 1.3: 2023-12-13
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description