7ZJF

R399E, a mutated form of GDF5, for disease modification of osteoarthritis

• PDB DOI: https://doi.org/10.2210/pdb7ZJF/pdb

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


• Deposited: 2022-04-10 Released: 2022-09-28 
• Deposition Author(s): Gigout, A., Wekmann, D., Menges, S., Brenneis, C., Henson, F., Cowan, K.J., Musil, D., Thudium, C., Guehring, H., Michaelis, M., Kleinschmidt-Doerr, K.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free: 0.222 
• R-Value Work: 0.207 
• R-Value Observed: 0.208 

Literature

R399E, A Mutated Form of Growth and Differentiation Factor 5, for Disease Modification of Osteoarthritis.

Gigout, A., Werkmann, D., Menges, S., Brenneis, C., Henson, F., Cowan, K.J., Musil, D., Thudium, C.S., Guhring, H., Michaelis, M., Kleinschmidt-Doerr, K.

(2023) Arthritis Rheumatol 75: 375-386

• PubMed: 36054172 
• DOI: https://doi.org/10.1002/art.42343
• Primary Citation of Related Structures:  
  7ZJF


• PubMed Abstract: 
  

  To preclinically characterize a mutant form of growth and differentiation factor 5, R399E, with reduced osteogenic properties as a potential disease-modifying osteoarthritis (OA) drug.

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Organizational Affiliation: 

Merck Healthcare KGaA 64293, Darmstadt, Germany.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 27.14 kDa 
• Atom Count: 2,107 
• Modelled Residue Count: 217 
• Deposited Residue Count: 240 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Growth/differentiation factor 5	A, B	120	Homo sapiens	Mutation(s): 1  Gene Names: GDF5, BMP14, CDMP1
UniProt & NIH Common Fund Data Resources
Find proteins for P43026 (Homo sapiens) Explore P43026  Go to UniProtKB:  P43026
PHAROS:  P43026 GTEx:  ENSG00000125965

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free: 0.222 
• R-Value Work: 0.207 
• R-Value Observed: 0.208 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 36.426	α = 90
b = 84.732	β = 90
c = 98.448	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
autoPROC	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-09-28 
Deposition Author(s): Gigout, A., Wekmann, D., Menges, S., Brenneis, C., Henson, F., Cowan, K.J., Musil, D., Thudium, C., Guehring, H., Michaelis, M., Kleinschmidt-Doerr, K.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2022-09-28
  Type: Initial release
  
• Version 1.1: 2023-03-22
  Changes: Database references
• Version 1.2: 2024-02-07
  Changes: Data collection, Refinement description