7AZB | pdb_00007azb

Structure of DDR2 DS domain in complex with VHH

• PDB DOI: https://doi.org/10.2210/pdb7AZB/pdb

• Classification: MEMBRANE PROTEIN
• Organism(s): Homo sapiens
• Expression System: Drosophila melanogaster, Escherichia coli
• Mutation(s): No 


• Deposited: 2020-11-16 Released: 2020-11-25 
• Deposition Author(s): Talagas, A., Nawrotek, A., Arrial, A., Vuillard, L.M., Miallau, L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.62 Å
• R-Value Free: 
  0.299 (Depositor), 0.308 (DCC) 
• R-Value Work: 
  0.210 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.214 (Depositor) 

Starting Model: experimental

Literature

Structure of DDR2 DS domain in complex with VHH

Talagas, A., Nawrotek, A., Vuillard, L.M., Miallau, L.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration, light scattering

Macromolecule Content 

• Total Structure Weight: 35.52 kDa 
• Atom Count: 2,151 
• Modeled Residue Count: 272 
• Deposited Residue Count: 321 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Discoidin domain-containing receptor 2	A	168	Homo sapiens	Mutation(s): 0  Gene Names: DDR2, NTRKR3, TKT, TYRO10 EC: 2.7.10.1
UniProt & NIH Common Fund Data Resources
Find proteins for Q16832 (Homo sapiens) Explore Q16832  Go to UniProtKB:  Q16832
PHAROS:  Q16832 GTEx:  ENSG00000162733

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
VHH	B	153	Homo sapiens	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.62 Å
• R-Value Free:  0.299 (Depositor), 0.308 (DCC) 
• R-Value Work:  0.210 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.214 (Depositor) 

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 63.244	α = 90
b = 63.244	β = 90
c = 120.854	γ = 120

Software Package:

Software Name	Purpose
BUSTER	refinement
XDS	data reduction
XSCALE	data scaling
BUSTER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2020-11-25 
Deposition Author(s): Talagas, A., Nawrotek, A., Arrial, A., Vuillard, L.M., Miallau, L.

Revision History  

• Version 1.0: 2020-11-25
  Type: Initial release
  
• Version 1.1: 2024-01-31
  Changes: Data collection, Database references, Refinement description
• Version 1.2: 2024-10-16
  Changes: Structure summary