6G8T

Crystal Structures of the Single PDZ Domains from GRASP65 and their Interaction with the Golgin GM130

• PDB DOI: https://doi.org/10.2210/pdb6G8T/pdb

• Classification: PROTEIN BINDING
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2018-04-10 Released: 2019-04-24 
• Deposition Author(s): Jurk, C.M., Roske, Y., Heinemann, U.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.67 Å
• R-Value Free: 0.258 
• R-Value Work: 0.209 
• R-Value Observed: 0.211 

Starting Model: experimental

Literature

Crystal Structures of the Single PDZ Domains from GRASP65 and their Interaction with the Golgin GM130

Jurk, C.M., Roske, Y., Heinemann, U.

(2018) Croat Chem Acta 

• DOI: https://doi.org/10.5562/cca3341

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 13.11 kDa 
• Atom Count: 864 
• Modelled Residue Count: 106 
• Deposited Residue Count: 118 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Golgi reassembly-stacking protein 1	A	118	Homo sapiens	Mutation(s): 0  Gene Names: GORASP1, GOLPH5, GRASP65
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BQQ3 (Homo sapiens) Explore Q9BQQ3  Go to UniProtKB:  Q9BQQ3
PHAROS:  Q9BQQ3 GTEx:  ENSG00000114745

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	B [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.67 Å
• R-Value Free: 0.258 
• R-Value Work: 0.209 
• R-Value Observed: 0.211 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.377	α = 90
b = 63.163	β = 90
c = 80.805	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2019-04-24 
Deposition Author(s): Jurk, C.M., Roske, Y., Heinemann, U.

Revision History  

• Version 1.0: 2019-04-24
  Type: Initial release
  
• Version 1.1: 2020-05-06
  Changes: Database references
• Version 1.2: 2024-01-17
  Changes: Data collection, Database references, Refinement description